diff --git a/CHANGELOG.md b/CHANGELOG.md
index 058f5c97f9..60312adc1e 100644
--- a/CHANGELOG.md
+++ b/CHANGELOG.md
@@ -52,6 +52,7 @@ A set of connecting glaciers.
 - [1743](https://github.com/nf-core/sarek/pull/1743) - Add setup java 17 in GHA for latest Nextflow version
 - [1745](https://github.com/nf-core/sarek/pull/1745) - Fix bug where workflow can hang if the email parameter is set
 - [1746](https://github.com/nf-core/sarek/pull/1746) - Fix Sentieon module inputs
+- [1752](https://github.com/nf-core/sarek/pull/1752) - Add `indexcov` and `lofreq` to full size tests. Amend overview figures.
 
 ### Removed
 
diff --git a/conf/test_full.config b/conf/test_full.config
index 1ba5ad2c78..0d00a965fc 100644
--- a/conf/test_full.config
+++ b/conf/test_full.config
@@ -18,7 +18,7 @@ params {
     input = 'https://raw.githubusercontent.com/nf-core/test-datasets/sarek/testdata/csv/HCC1395_WXS_somatic_full_test.csv'
 
     // Other params
-    tools       = 'ngscheckmate,strelka,mutect2,freebayes,ascat,manta,cnvkit,tiddit,controlfreec,vep,snpeff'
+    tools       = 'ngscheckmate,lofreq,strelka,mutect2,freebayes,ascat,manta,cnvkit,tiddit,controlfreec,vep,snpeff'
     split_fastq = 20000000
     intervals   = 's3://ngi-igenomes/test-data/sarek/S07604624_Padded_Agilent_SureSelectXT_allexons_V6_UTR.bed'
     wes         = true
diff --git a/conf/test_full_germline.config b/conf/test_full_germline.config
index d731a25709..4b2421c625 100644
--- a/conf/test_full_germline.config
+++ b/conf/test_full_germline.config
@@ -18,6 +18,6 @@ params {
     input = 'https://raw.githubusercontent.com/nf-core/test-datasets/sarek/testdata/csv/NA12878_WGS_30x_full_test.csv'
 
     // Other params
-    tools       = 'strelka,freebayes,haplotypecaller,deepvariant,manta,tiddit,cnvkit,vep,snpeff'
+    tools       = 'indexcov,strelka,freebayes,haplotypecaller,deepvariant,manta,tiddit,cnvkit,vep,snpeff'
     split_fastq = 50000000
 }
diff --git a/docs/images/sarek_workflow.png b/docs/images/sarek_workflow.png
index 3f47f10829..8b993ab268 100644
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index 416bbb1553..c28d400a13 100644
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+++ b/docs/images/sarek_workflow.svg
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+     sodipodi:role="line"><tspan
        x="1850.3204"
        y="-1675.385"
        style="font-size:19.9999px;line-height:1.25;stroke-width:1px"
@@ -3309,51 +3315,51 @@
        y="-1675.385"
        style="font-style:normal;font-variant:normal;font-weight:normal;font-stretch:normal;font-size:20px;font-family:'Maven Pro';-inkscape-font-specification:'Maven Pro, Normal';font-variant-ligatures:normal;font-variant-caps:normal;font-variant-numeric:normal;font-variant-east-asian:normal;stroke-width:1px"
        id="tspan23796">freebayes, mutect2, </tspan></tspan><tspan
-     sodipodi:role="line"
      x="1850.3204"
      y="-1650.3851"
      id="tspan23806"
-     style="font-style:normal;font-variant:normal;font-weight:normal;font-stretch:normal;font-size:20px;font-family:'Maven Pro';-inkscape-font-specification:'Maven Pro, Normal';font-variant-ligatures:normal;font-variant-caps:normal;font-variant-numeric:normal;font-variant-east-asian:normal;stroke-width:1px"><tspan
+     style="font-style:normal;font-variant:normal;font-weight:normal;font-stretch:normal;font-size:20px;font-family:'Maven Pro';-inkscape-font-specification:'Maven Pro, Normal';font-variant-ligatures:normal;font-variant-caps:normal;font-variant-numeric:normal;font-variant-east-asian:normal;stroke-width:1px"
+     sodipodi:role="line"><tspan
        x="1850.3204"
        y="-1650.3851"
        style="font-style:normal;font-variant:normal;font-weight:normal;font-stretch:normal;font-size:20px;line-height:1.25;font-family:'Maven Pro';-inkscape-font-specification:'Maven Pro, Normal';font-variant-ligatures:normal;font-variant-caps:normal;font-variant-numeric:normal;font-variant-east-asian:normal;stroke-width:1px"
        id="tspan23802"
        dx="0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0">   strelka2, lofreq</tspan></tspan><tspan
-     sodipodi:role="line"
      x="1850.3204"
      y="-1625.3853"
      id="tspan23812"
-     style="font-style:normal;font-variant:normal;font-weight:normal;font-stretch:normal;font-size:20px;font-family:'Maven Pro';-inkscape-font-specification:'Maven Pro, Normal';font-variant-ligatures:normal;font-variant-caps:normal;font-variant-numeric:normal;font-variant-east-asian:normal;stroke-width:1px"><tspan
+     style="font-style:normal;font-variant:normal;font-weight:normal;font-stretch:normal;font-size:20px;font-family:'Maven Pro';-inkscape-font-specification:'Maven Pro, Normal';font-variant-ligatures:normal;font-variant-caps:normal;font-variant-numeric:normal;font-variant-east-asian:normal;stroke-width:1px"
+     sodipodi:role="line"><tspan
        x="1850.3204"
        y="-1625.3853"
        style="font-style:normal;font-variant:normal;font-weight:normal;font-stretch:normal;font-size:20px;line-height:1.25;font-family:'Maven Pro';-inkscape-font-specification:'Maven Pro, Normal';font-variant-ligatures:normal;font-variant-caps:normal;font-variant-numeric:normal;font-variant-east-asian:normal;stroke-width:1px"
        id="tspan23808"
        dx="0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0">• manta, tiddit</tspan></tspan><tspan
-     sodipodi:role="line"
      x="1850.3204"
      y="-1600.3854"
      id="tspan23818"
-     style="font-style:normal;font-variant:normal;font-weight:normal;font-stretch:normal;font-size:20px;font-family:'Maven Pro';-inkscape-font-specification:'Maven Pro, Normal';font-variant-ligatures:normal;font-variant-caps:normal;font-variant-numeric:normal;font-variant-east-asian:normal;stroke-width:1px"><tspan
+     style="font-style:normal;font-variant:normal;font-weight:normal;font-stretch:normal;font-size:20px;font-family:'Maven Pro';-inkscape-font-specification:'Maven Pro, Normal';font-variant-ligatures:normal;font-variant-caps:normal;font-variant-numeric:normal;font-variant-east-asian:normal;stroke-width:1px"
+     sodipodi:role="line"><tspan
        x="1850.3204"
        y="-1600.3854"
        style="font-style:normal;font-variant:normal;font-weight:normal;font-stretch:normal;font-size:20px;line-height:1.25;font-family:'Maven Pro';-inkscape-font-specification:'Maven Pro, Normal';font-variant-ligatures:normal;font-variant-caps:normal;font-variant-numeric:normal;font-variant-east-asian:normal;stroke-width:1px"
        id="tspan23814"
        dx="0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0">• ascat, cnvkit,</tspan></tspan><tspan
-     sodipodi:role="line"
      x="1850.3204"
      y="-1575.3855"
      id="tspan23824"
-     style="font-style:normal;font-variant:normal;font-weight:normal;font-stretch:normal;font-size:20px;font-family:'Maven Pro';-inkscape-font-specification:'Maven Pro, Normal';font-variant-ligatures:normal;font-variant-caps:normal;font-variant-numeric:normal;font-variant-east-asian:normal;stroke-width:1px"><tspan
+     style="font-style:normal;font-variant:normal;font-weight:normal;font-stretch:normal;font-size:20px;font-family:'Maven Pro';-inkscape-font-specification:'Maven Pro, Normal';font-variant-ligatures:normal;font-variant-caps:normal;font-variant-numeric:normal;font-variant-east-asian:normal;stroke-width:1px"
+     sodipodi:role="line"><tspan
        x="1850.3204"
        y="-1575.3855"
        style="font-style:normal;font-variant:normal;font-weight:normal;font-stretch:normal;font-size:20px;line-height:1.25;font-family:'Maven Pro';-inkscape-font-specification:'Maven Pro, Normal';font-variant-ligatures:normal;font-variant-caps:normal;font-variant-numeric:normal;font-variant-east-asian:normal;stroke-width:1px"
        id="tspan23820"
        dx="0 0 0 0 0 0 0 0 0 0 0 0 0 0 0">  controlfreec</tspan></tspan><tspan
-     sodipodi:role="line"
      x="1850.3204"
      y="-1550.3856"
      id="tspan23828"
-     style="font-style:normal;font-variant:normal;font-weight:normal;font-stretch:normal;font-size:20px;font-family:'Maven Pro';-inkscape-font-specification:'Maven Pro, Normal';font-variant-ligatures:normal;font-variant-caps:normal;font-variant-numeric:normal;font-variant-east-asian:normal;stroke-width:1px"><tspan
+     style="font-style:normal;font-variant:normal;font-weight:normal;font-stretch:normal;font-size:20px;font-family:'Maven Pro';-inkscape-font-specification:'Maven Pro, Normal';font-variant-ligatures:normal;font-variant-caps:normal;font-variant-numeric:normal;font-variant-east-asian:normal;stroke-width:1px"
+     sodipodi:role="line"><tspan
        x="1850.3204"
        y="-1550.3856"
        style="font-style:normal;font-variant:normal;font-weight:normal;font-stretch:normal;font-size:20px;line-height:1.25;font-family:'Maven Pro';-inkscape-font-specification:'Maven Pro, Normal';font-variant-ligatures:normal;font-variant-caps:normal;font-variant-numeric:normal;font-variant-east-asian:normal;stroke-width:1px"
@@ -3374,50 +3380,44 @@
    x="-73.996574"
    y="0"><tspan
      x="21.957031"
-     y="846.21222"
-     id="tspan15">Germline
+     y="845.03542"
+     id="tspan1">Germline
 </tspan><tspan
      x="21.957031"
-     y="877.41223"
-     id="tspan19"><tspan
-       style="font-weight:normal;font-size:26.6667px"
-       id="tspan16">•</tspan><tspan
+     y="876.23543"
+     id="tspan4"><tspan
        style="font-weight:normal;font-size:26.6667px"
-       id="tspan17"> deepvariant, </tspan><tspan
-       style="font-weight:normal;font-size:26.6667px"
-       id="tspan18">freebayes
+       id="tspan3">• deepvariant, freebayes
 </tspan></tspan><tspan
      x="21.957031"
-     y="908.61225"
-     id="tspan22"><tspan
-       style="font-weight:normal;font-size:26.6667px"
-       id="tspan20">   GATK </tspan><tspan
+     y="907.43544"
+     id="tspan6"><tspan
        style="font-weight:normal;font-size:26.6667px"
-       id="tspan21">haplotypecaller,
+       id="tspan5">   GATK haplotypecaller,
 </tspan></tspan><tspan
      x="21.957031"
-     y="939.81226"
-     id="tspan24"><tspan
+     y="938.63545"
+     id="tspan8"><tspan
        style="font-weight:normal;font-size:26.6667px"
-       id="tspan23">   mpileup, strelka2,
+       id="tspan7">   Sentieon haplotyper 
 </tspan></tspan><tspan
      x="21.957031"
-     y="971.01227"
-     id="tspan26"><tspan
+     y="969.83547"
+     id="tspan10"><tspan
        style="font-weight:normal;font-size:26.6667px"
-       id="tspan25">   Sentieon haplotyper
+       id="tspan9">   mpileup, strelka2
 </tspan></tspan><tspan
      x="21.957031"
-     y="1002.2123"
-     id="tspan28"><tspan
+     y="1001.0355"
+     id="tspan12"><tspan
        style="font-weight:normal;font-size:26.6667px"
-       id="tspan27">• manta, tiddit
+       id="tspan11">• indexcov,manta, tiddit
 </tspan></tspan><tspan
      x="21.957031"
-     y="1033.4123"
-     id="tspan34"><tspan
+     y="1032.2355"
+     id="tspan14"><tspan
        style="font-weight:normal;font-size:26.6667px"
-       id="tspan33">• cnvkit</tspan></tspan></text></g><g
+       id="tspan13">• cnvkit</tspan></tspan></text></g><g
    transform="matrix(0.60699338,0,0,-0.60699338,1601.5501,2205.8332)"
    style="display:inline"
    inkscape:label="Sarek"
@@ -3741,7 +3741,11 @@
 
 
 
-</g><style
+<text
+   xml:space="preserve"
+   transform="matrix(0.74999996,0,0,-0.74999996,1552.2133,2357.6141)"
+   id="text2"
+   style="fill:#000000;text-orientation:auto;text-align:start;writing-mode:lr-tb;direction:ltr;font-size:16px;white-space:pre;shape-inside:url(#rect2)" /></g><style
      id="style4691"
      type="text/css">
 	.st0{fill:#E01E5A;}
diff --git a/docs/usage.md b/docs/usage.md
index 0a279cd6c5..8231d40be8 100644
--- a/docs/usage.md
+++ b/docs/usage.md
@@ -1244,7 +1244,7 @@ Currently, Sentieon's version of BQSR, QualCal, is not available in Sarek. Recen
 ## Requested resources for the tools
 
 Resource requests are difficult to generalize and are often dependent on input data size. Currently, the number of cpus and memory requested by default were adapted from tests on 5 ICGC paired whole-genome sequencing samples with approximately 40X and 80X depth.
-For targeted data analysis, this is overshooting by a lot. In this case resources for each process can be limited by either setting `--max_memory` and `-max_cpus` or tailoring the request by process name as described [here](#resource-requests). If you are using sarek for a certain data type regulary, and would like to make these requests available to others on your system, an institution-specific, pipeline-specific config file can be added [here](https://github.com/nf-core/configs/tree/master/conf/pipeline/sarek).
+For targeted data analysis, this is overshooting by a lot. In this case resources for each process can be limited by tailoring the request by process name as described [here](#resource-requests). If you are using sarek for a certain data type regulary, and would like to make these requests available to others on your system, an institution-specific, pipeline-specific config file can be added [here](https://github.com/nf-core/configs/tree/master/conf/pipeline/sarek).
 
 ## CNV calling with CNVkit
 
diff --git a/docs/usage/variantcalling/sarek.md b/docs/usage/variantcalling/sarek.md
index 150f01d72a..9e071937cd 100644
--- a/docs/usage/variantcalling/sarek.md
+++ b/docs/usage/variantcalling/sarek.md
@@ -88,11 +88,17 @@ They can also be added to the parameters directive in the config file we just ed
 
 ```groovy
 params {
-    max_cpus                  = 2
-    max_memory                = '6.5GB'
-    max_time                  = '2.h'
     use_annotation_cache_keys = true
 }
+
+process {
+    resourceLimits = [
+        cpus: 2,
+        memory: '6.5GB',
+        time: '2.h'
+    ]
+}
+
 ```
 
 The parameter `use_annotation_cache_keys` allows the annotation software to deal with the local paths when the cache is downloaded on the environment.