Difference between revisions of "FreeBayes"
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FreeBayes is a high-performance, flexible, and open-source Bayesian genetic variant detector. It operates on BAM alignment files, which are produced by most contemporary short-read aligners. | FreeBayes is a high-performance, flexible, and open-source Bayesian genetic variant detector. It operates on BAM alignment files, which are produced by most contemporary short-read aligners. | ||
Revision as of 01:53, 10 August 2012
Description
FreeBayes is a high-performance, flexible, and open-source Bayesian genetic variant detector. It operates on BAM alignment files, which are produced by most contemporary short-read aligners.
In addition to substantial performance improvements over its predecessors (PolyBayes, GigaBayes, and BamBayes), it expands the scope of SNP and small-indel variant calling to populations of individuals with heterogeneous copy number. FreeBayes is currently under active development. Template:App Location
Available versions
- 0.9.4
Running the application using modules
To use freebayes with the environment modules system at HPC the following commands are available:
Get module information for freebayes:
$module spider freebayes
Load the default application module:
$module load freebayes
The modulefile for this software adds the directory with executable files to the shell execution PATH and sets the following environment variables:
- HPC_FREEBAYES_DIR - directory where freebayes is located.
- HPC_FREEBAYES_BIN - executable directory