RevBayes

From MolEvol

Course materials by Tracy Heath and Michael Landis on substitution models and phylogenetic reconstruction in RevBayes


Background Reading

  • Höhna et al. 2016. RevBayes: Bayesian phylogenetic inference using graphical models and an interactive model-specification language. Systematic Biology, 65:726-736. (PDF)
  • Höhna et al. 2014. Probabilistic graphical model representation in phylogenetics. Systematic Biology 63:753–771. (PDF)


Lecture

  • Introduction to RevBayes slides
    • Available to view or download on slideshare (updated: 2016 version)
  • RevBayes script for demo: lnorm.Rev


Phylogenetic Inference using RevBayes: Substitution Models for Unconstrained Trees

RevBayes

Software downloads, tutorials, documentation, and other resources can be found on the RevBayes web page: http://revbayes.com

RevBayes source code can be found on GitHub: https://github.com/revbayes/revbayes

Tutorial

The detailed lab practical document can be found here: tutorial PDF

Help files

Online Help Files

  • Search for RevBayes commands in the upper right corner.
  • Filter by command type by (un-)checking boxes.

Data & Analysis Files

Additional software

On the MBL Cluster

On the course cluster, make a copy of the lab directory for your analysis:

cp -R /class/molevol-software/revbayes_lab/ .

Enter your new copy of the lab directory:

cd revbayes_lab

Execute RevBayes:

rb

Additional Software