Difference between revisions of "MATS"
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Revision as of 16:32, 10 August 2012
Description
MATS is a computational tool to detect differential alternative splicing events from RNA-Seq data. The statistical model of MATS calculates the P-value and false discovery rate that the difference in the isoform ratio of a gene between two conditions exceeds a given user-defined threshold. From the RNA-Seq data, MATS can automatically detect and analyze alternative splicing events corresponding to all major types of alternative splicing patterns.
Execution Environment and Modules
To use mats with the environment modules system at HPC the following commands are available:
Get module information for mats:
$module spider mats
Load the default application module:
$module load mats
The modulefile for this software adds the directory with executable files to the shell execution PATH and sets the following environment variables:
- HPC_MATS_DIR - directory where mats is located.
- HPC_MATS_BIN - executable directory