Difference between revisions of "RevBayes"

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(Lecture)
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** Available to view or download on [http://www.slideshare.net/trayc7/lecture-on-revbayes-at-the-mbl-workshop-on-molecular-evolution slideshare] (updated: 2016 version)
 
** Available to view or download on [http://www.slideshare.net/trayc7/lecture-on-revbayes-at-the-mbl-workshop-on-molecular-evolution slideshare] (updated: 2016 version)
 
* RevBayes script for demo: [http://phyloworks.org/workshops/lnorm.Rev lnorm.Rev]
 
* RevBayes script for demo: [http://phyloworks.org/workshops/lnorm.Rev lnorm.Rev]
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== Phylogenetic Inference using RevBayes: Substitution Models for Unconstrained Trees ==
 
== Phylogenetic Inference using RevBayes: Substitution Models for Unconstrained Trees ==

Revision as of 18:42, 20 July 2016

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

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