Merge pull request #18 from scrm/update/vignettes

Update/vignettes

Author: paulstaab

Diff for: DESCRIPTION

@@ -10,9 +10,9 @@ Authors@R: c( person('Paul', 'Staab', , '[email protected]', role=c('aut',
 Description: A coalescent simulator that allows the rapid simulation of
     biological sequences under neutral models of evolution. Different to
     other coalescent based simulations, scrm has an optional approximation
-    parameter that allows for high accuracy while maintaining a linear runtime
-    cost for long sequences. It is optimized for simulating massive datasets as
-    produced by Next-Generation Sequencing technologies for up to several ten-thousand
+    parameter that allows for high accuracy while maintaining a linear run time
+    cost for long sequences. It is optimized for simulating massive data sets as
+    produced by Next-Generation Sequencing technologies for up to several thousand
     sequences.
 URL: https://github.com/scrm/scrm-r
 License: GPL (>= 3)

Diff for: vignettes/scrm-Arguments.Rmd

@@ -1,5 +1,5 @@
 ---
-title: "Command Line Arguments"
+title: "scrm's Arguments"
 author: "Paul Staab"
 date: "`r Sys.Date()`"
 output: rmarkdown::html_vignette
@@ -113,4 +113,4 @@ The following commands change the model parameters from at a sequence position _
 
 
 [1]: http://home.uchicago.edu/~rhudson1/source/mksamples.html
-[2]: https://webshare.uchicago.edu/users/rhudson1/Public/ms.folder/msdoc.pdf?ticket=t_DunQ7c99
+[2]: https://webshare.uchicago.edu/users/rhudson1/Public/ms.folder/msdoc.pdf?ticket=t_DunQ7c99

Diff for: vignettes/scrm-TreesForApe.Rmd

@@ -9,8 +9,6 @@ vignette: >
   %\usepackage[utf8]{inputenc}
 ---
 
-# Simulating trees for ape
-
 ```{r echo=FALSE}
 set.seed(40)
 ```