From fbd1829c16c99a61c66a9ed0a3b42a0d13db7797 Mon Sep 17 00:00:00 2001
From: Maciej Motyka <39633561+maciejmotyka@users.noreply.github.com>
Date: Mon, 6 Apr 2020 11:39:24 +0200
Subject: [PATCH] Update vignette text to match command output

Text didn't match the output of the commands.

which(as.matrix(Dscape$D)["NJ",]==0)
## NJ_boots91         NJ
##        291        401

which(as.matrix(Dscape$D)["ML",]==0)
##  ML
## 402
---
 vignettes/DengueVignette.Rmd | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/vignettes/DengueVignette.Rmd b/vignettes/DengueVignette.Rmd
index 0fb1eae..4f13f49 100644
--- a/vignettes/DengueVignette.Rmd
+++ b/vignettes/DengueVignette.Rmd
@@ -221,7 +221,7 @@ which(as.matrix(Dscape$D)["NJ",]==0)
 which(as.matrix(Dscape$D)["ML",]==0)
 ```
 
-This shows that the NJ tree has the same topology as one NJ bootstrap tree and one ML bootstrap tree. The ML tree has the same topology as 15 ML bootstrap trees, but no NJ bootstrap trees.
+This shows that the NJ tree has the same topology as one NJ bootstrap tree. The ML tree has a topology that is not repeated in any of ML or NJ bootstrap trees.
 
 We can compare pairs of trees using the `plotTreeDiff` function to see exactly where their differences arise. 
 Tips with identical ancestry in the two trees are coloured grey, whereas tips with differing ancestry are coloured peach-red, with the colour darkening according to the number of ancestral differences found at each tip.