Difference between revisions of "CisGenome"

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m (Text replace - "Usage policy" to "Usage Policy")
 
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__NOTOC__
 
__NOTOC__
 
__NOEDITSECTION__
 
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[[Category:Software]][[Category:Bioinformatics]][[Category:Genomics]]
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[[Category:Software]][[Category:Biology]][[Category:Genomics]]
<!-- ########  Template Configuration ######## -->
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{|<!--Main settings - REQUIRED-->
<!--Edit definitions of the variables used in template calls
 
Required variables:
 
app - lowercase name of the application e.g. "amber"
 
url - url of the software page (project, company product, etc) - e.g. "http://ambermd.org/"
 
Optional variables:
 
INTEL - Version of the Intel Compiler e.g. "11.1"
 
MPI - MPI Implementation and version e.g. "openmpi/1.3.4"
 
-->
 
{|
 
<!--Main settings - REQUIRED-->
 
 
|{{#vardefine:app|cisgenome}}
 
|{{#vardefine:app|cisgenome}}
 
|{{#vardefine:url|http://www.biostat.jhsph.edu/~hji/cisgenome/index.htm}}
 
|{{#vardefine:url|http://www.biostat.jhsph.edu/~hji/cisgenome/index.htm}}
<!--Compiler and MPI settings - OPTIONAL -->
 
|{{#vardefine:intel|}} <!-- E.g. "11.1" -->
 
|{{#vardefine:mpi|}} <!-- E.g. "openmpi/1.3.4" -->
 
<!--Choose sections to enable - OPTIONAL-->
 
|{{#vardefine:mod|1}} <!--Present instructions for running the software with modules -->
 
 
|{{#vardefine:exe|}} <!--Present manual instructions for running the software -->
 
|{{#vardefine:exe|}} <!--Present manual instructions for running the software -->
 
|{{#vardefine:conf|}} <!--Enable config wiki page link - {{#vardefine:conf|1}} = ON/conf|}} = OFF-->
 
|{{#vardefine:conf|}} <!--Enable config wiki page link - {{#vardefine:conf|1}} = ON/conf|}} = OFF-->
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<!--Modules-->
 
<!--Modules-->
{{#if: {{#var: mod}}|==Execution Environment and Modules==
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==Environment Modules==
{{App_Module|app={{#var:app}}|intel={{#var:intel}}|mpi={{#var:mpi}}}}|}}
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Run <code>module spider {{#var:app}}</code> to find out what environment modules are available for this application.
* HPC_CISGENOME_BIN - executable directory
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==System Variables==
{{#if: {{#var: exe}}|==How To Run==
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* HPC_{{uc:{{#var:app}}}}_DIR - installation directory
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<!--Additional-->
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{{#if: {{#var: exe}}|==Additional Information==
 
WRITE INSTRUCTIONS ON RUNNING THE ACTUAL BINARY|}}
 
WRITE INSTRUCTIONS ON RUNNING THE ACTUAL BINARY|}}
 
{{#if: {{#var: conf}}|==Configuration==
 
{{#if: {{#var: conf}}|==Configuration==

Latest revision as of 18:30, 12 August 2022

Description

cisgenome website  

An integrated tool for tiling array, ChIP-seq, genome and cis-regulatory element analysis.

Environment Modules

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

System Variables

  • HPC_CISGENOME_DIR - installation directory