MrBayes:

Bayesian Inference of Phylogeny
 
 
MrBayes is a program for the Bayesian estimation of phylogeny. Bayesian inference of phylogeny is based upon a quantity called the posterior probability distribution of trees, which is the probability of a tree conditioned on the observations. The conditioning is accomplished using Bayes's theorem. The posterior probability distribution of trees is impossible to calculate analytically; instead, MrBayes uses a simulation technique called Markov chain Monte Carlo (or MCMC) to approximate the posterior probabilities of trees.

Program features include:

  • Ability to analyze nucleotide, amino acid, restriction site, and morphological data
  • Mixing of data types, such as molecular and morphological characters, in a single analysis
  • A general method for assigning parameters across data partitions
  • An abundance of evolutionary models, including 4 X 4, doublet, and codon models for nucleotide data and many of the standard rate matrices for amino acid data
  • Estimation of positively selected sites in a fully hierarchical Bayes framework
  • Parallel version for high-performance computing
 
Usage
A parallelized version of MrBayes is available on the Bioinformatics cluster. It takes advantage of the cluster's 64-CPU architecture for high-performance computing. To get an account on the cluster please see the Accounts page or contact Richard Casey below. Also, contact Richard Casey for information about configuring your account to run MrBayes jobs on the cluster.
 
Documents
Documentation for MrBayes is available in the documents webpage.
 
MrBayes Website
For more information about MrBayes, visit the MrBayes website
 
For more information contact:
Richard Casey, PhD
Ph: 970-491-8568
Cell: 970-980-5975
Email: richard.casey@colostate.edu
 

© Copyright 2009, Colorado State University
Fort Collins, Colorado 80523
Maintained by Richard Casey