# ICHEC Software

Information about software packages installed on the ICHEC systems.

## MrBayes

### Versions Installed

Stokes: 3.1.2 / 3.2-rev120

Stoney: 3.1.2

### Description

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.

### License

MrBayes is free software; you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation; either version 2 of the License, or (at your option) any later version. The program is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details

### Benchmarks

N/A.

### Additional Notes

To use MrBayes load the relevant environment module:

Further information can be obtained from MrBayes: Home and the MrBayes Wiki.

### How to cite MrBayes:

Huelsenbeck J. P., Ronquist F., Nielsen R. and Bollback J.P. (2001)

Bayesian inference of phylogeny and its impact on evolutionary biology.

Science **294**: 2310-2314.

Ronquist F. and Huelsenbeck J.P. (2003)

MRBAYES 3: Bayesian phylogenetic inference under mixed models.

Bioinformatics **19**: 1572-1574.