Difference between revisions of "MATS"
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Moskalenko (talk | contribs) m (Text replacement - "#uppercase" to "uc") |
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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. | ||
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<!--Modules--> | <!--Modules--> | ||
− | + | ==Required Modules== | |
− | + | [[Modules|modules documentation]] | |
− | + | ===Serial=== | |
+ | *{{#var:app}} | ||
+ | ==System Variables== | ||
+ | * HPC_{{uc:{{#var:app}}}}_DIR - installation directory | ||
* HPC_MATS_BIN - executable directory | * HPC_MATS_BIN - executable directory | ||
<!--Run--> | <!--Run--> | ||
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See the [[{{PAGENAME}}_PBS]] page for {{#var: app}} PBS script examples.|}} | See the [[{{PAGENAME}}_PBS]] page for {{#var: app}} PBS script examples.|}} | ||
<!--Policy--> | <!--Policy--> | ||
− | {{#if: {{#var: policy}}|==Usage | + | {{#if: {{#var: policy}}|==Usage Policy== |
WRITE USAGE POLICY HERE (perhaps templates for a couple of main licensing schemes can be used) | WRITE USAGE POLICY HERE (perhaps templates for a couple of main licensing schemes can be used) | ||
|}} | |}} | ||
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See the [[{{PAGENAME}}_Install]] page for {{#var: app}} installation notes.|}} | See the [[{{PAGENAME}}_Install]] page for {{#var: app}} installation notes.|}} | ||
__NOTOC____NOEDITSECTION__ | __NOTOC____NOEDITSECTION__ | ||
+ | =Validation= | ||
+ | * Validated 4/5/2018 |
Revision as of 21:21, 6 December 2019
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.
Required Modules
Serial
- mats
System Variables
- HPC_MATS_DIR - installation directory
- HPC_MATS_BIN - executable directory
Validation
- Validated 4/5/2018