BEAST (Bayesian Evolutionary Analysis Sampling Trees) is a cross-platform program for Bayesian MCMC analysis of molecular sequences. It is entirely orientated towards rooted, time-measured phylogenies inferred using strict or relaxed molecular clock models. It can be used as a method of reconstructing phylogenies but is also a framework for testing evolutionary hypotheses without conditioning on a single tree topology. BEAST uses MCMC to average over tree space, so that each tree is weighted proportional to its posterior probability. We include a simple to use user-interface program for setting up standard analyses and a suit of programs for analysing the results.
How to Use
Please set your environment using environment modules:module load BEAST
Older versions can be found using the commandmodule avail BEAST
Once your environment is set, then simply run a command. Here is a simple example:cp $BEAST_EXAMPLES/Benchmarks/benchmark1.xml . beast benchmark1.xml