Difference between revisions of "STAR"

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[[Category:Software]][[Category:Bioinformatics]][[Category:NGS]]
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[[Category:Software]][[Category:Biology]][[Category:NGS]][[Category:RNA-Seq]]
 
{|<!--CONFIGURATION: REQUIRED-->
 
{|<!--CONFIGURATION: REQUIRED-->
 
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A. Dobin et al, Bioinformatics 2012; doi: 10.1093/bioinformatics/bts635 "STAR: ultrafast universal RNA-seq aligner"
 
A. Dobin et al, Bioinformatics 2012; doi: 10.1093/bioinformatics/bts635 "STAR: ultrafast universal RNA-seq aligner"
 
<!--Modules-->
 
<!--Modules-->
==Required Modules==
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==Environment Modules==
===Serial===
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Run <code>module spider {{#var:app}}</code> to find out what environment modules are available for this application.
* {{#var:app}}
 
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===Parallel (OpenMP)===
 
* intel
 
* {{#var:app}}
 
===Parallel (MPI)===
 
* intel
 
* openmpi
 
* {{#var:app}}
 
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==System Variables==
 
==System Variables==
* HPC_{{uc:{{#var:app}}}}_DIR
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* HPC_{{uc:{{#var:app}}}}_DIR - installation directory
 
<!--Configuration-->
 
<!--Configuration-->
 
{{#if: {{#var: conf}}|==Configuration==
 
{{#if: {{#var: conf}}|==Configuration==

Latest revision as of 16:01, 22 August 2022

Description

star website  

STAR aligns RNA-seq reads to a reference genome using uncompressed suffix arrays.

For details, please see the paper:

A. Dobin et al, Bioinformatics 2012; doi: 10.1093/bioinformatics/bts635 "STAR: ultrafast universal RNA-seq aligner"

Environment Modules

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

System Variables

  • HPC_STAR_DIR - installation directory

Additional Information

Make sure to set a directory for temporary files within your /blue working directory with the '--outTempDir argument to avoid job crashes and filling up diskless compute nodes. See Temporary Directories for more information.