Skip to content

PoMoBalance.md

Latest commit

 

History

History
50 lines (31 loc) · 1.84 KB

PoMoBalance.md

File metadata and controls

50 lines (31 loc) · 1.84 KB

PoMoBalance exercises for Cold Spring Habor pre-workshop for ProbGen 2025 Meeting

Workshop

The ProbGen meeting includes a workshop that will run on the first day pre-meeting. The workshop consists of talks and demo's including practical exercises for PoMoBalance based on RevBayes tutorial.

The PoMoBalance tutorial can be found at:

Software

Before the workshop starts, please install the following software on your own computer:

  • RevBayes. For this workshop, we will be using the development RevBayes branch, where the polymorphism-aware models are all available. Make sure you follow the instructions below to install RevBayes. Other helpful software:
  • Tracer
  • FigTree
  • R or RStudio with the package Rcpp
  • A good text editor, such as Sublime Text, NotePad++, Atom, BBEdit, vim, or emacs. Word is not a good text editor!

Install RevBayes

Compile on Linux

Follow the installation steps here.

Compile on Mac OS X

Follow the installation steps here.

Compile on Windows

Follow the installation steps here. However, we will not be using the standard revbayes branch for this workshop, but the one that has the PoMo models. Clone the dev_PoMo repository instead of the master one. This is done by substituting the following step

 git clone https://github.com/revbayes/revbayes.git revbayes

by this one:

git clone --branch development https://github.com/revbayes/revbayes.git revbayes

Then change to the PoMoBalance branch by typing:

git checkout dev_PoMo_bs_master