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mats website  

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