BaTS v0.9.0 stable

About

Version 0.9.0 of BaTS, as used in the main paper (Parker et al, 2008) describing the approach. This is also the version distributed on the evolve.zoo website and science.lonelyjoeparker.com, among other places. It will analyse posterior sets of trees (PSTs) generated using BEAST or MrBayes, single-file or batch-directory mode. It calculates the AI, PS and MC statistics (generalised to n discrete states).

Compatibility / requirements

This reasonably stable beta version can be expected to successfully run correctly-formatted input files (including the example.trees file provided) on most compatible operating systems, and requires Java 1.5+ / J2SE or higher.

Usage

For detailed guidance, start at the readme. Note that most user problems are due to incorrectly formatted input files.

To get started (assuming Java v1.5+ is present, and input and .jar files are present in the same directory), this code can be run with:

java -jar BaTS_beta.jar single example.trees 10 7

for single-file operation. For batch operation run:

java -jar BaTS_beta.jar batch <some_dir> 10 7

where <some_dir> is a directory containing correctly-formatted *trees files. BaTS will try to analyse every file in the directory, but will not traverse subdirectories.

Version numbering - note!

Note that previous distributions of this binary have variously been labelled as 'BaTS v1', 'BaTS_beta', or 'BaTSbeta_build2'. For simplicity the many different versions have been retroactively renamed; a complete list of previous versions can be found here with the binaries themselves found here.