Installs

April Wright

8/9/2018

In RStudio:

devtools::install_github("wrightaprilm/treestartr")
devtools::install_github("wrightaprilm/treesiftr")
devtools::install_github("sjspielman/alignfigR")
install.packages("phangorn")
install.packages("phytools")
install.packages("ggtree")
install.packages("FossilSim")
source("https://bioconductor.org/biocLite.R")
# biocLite("BiocUpgrade") # you may need this
biocLite("ggtree")
biocLite("Biostrings")

In the Unix terminal:

git clone https://github.com/revbayes/revbayes.git
cd revbayes/projects/cmake
./build.sh

If you get a “CMake not found” error, please install CMake. The easiest way is with homebrew:

#Skip the first line if you have homebrew
ruby -e "$(curl -fsSL https://raw.githubusercontent.com/Homebrew/install/master/install)" 

brew install cmake

In browser:

• Choose a command-line binary of PAUP for your system here
• Tracer, for viewing posterior samples
• FigTree, for tree viewing