Difference between revisions of "MATS"

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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.
 
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.
 
 
<!--Modules-->
 
<!--Modules-->
==Required Modules==
+
==Environment Modules==
[[Modules|modules documentation]]
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Run <code>module spider {{#var:app}}</code> to find out what environment modules are available for this application.
===Serial===
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==System Variables==
*{{#var:app}}
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* HPC_{{uc:{{#var:app}}}}_DIR - installation directory
<!--Add additional HPC_FOO_BIN and other ENV VARIABLES below-->
 
 
* HPC_MATS_BIN - executable directory
 
* HPC_MATS_BIN - executable directory
==System Variables==
 
* HPC_{{#uppercase:{{#var:app}}}}_DIR - installation directory
 
 
<!--Run-->
 
<!--Run-->
 
 
{{#if: {{#var: exe}}|==How To Run==
 
{{#if: {{#var: exe}}|==How To Run==
 
DOUBLE_CLICK_TO_WRITE_INSTRUCTIONS_ON_RUNNING_THE_ACTUAL_BINARY
 
DOUBLE_CLICK_TO_WRITE_INSTRUCTIONS_ON_RUNNING_THE_ACTUAL_BINARY

Revision as of 16:59, 10 June 2022

Description

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.

Environment Modules

Run module spider mats to find out what environment modules are available for this application.

System Variables

  • HPC_MATS_DIR - installation directory
  • HPC_MATS_BIN - executable directory