Difference between revisions of "PeakSplitter"

From UFRC
Jump to navigation Jump to search
m (Text replace - "{{App_Description|app={{#var:app}}|url={{#var:url}}}}|}}" to "{{App_Description|app={{#var:app}}|url={{#var:url}}|name={{#var:app}}}}|}} ")
 
(15 intermediate revisions by 3 users not shown)
Line 1: Line 1:
 
__NOTOC__
 
__NOTOC__
 
__NOEDITSECTION__
 
__NOEDITSECTION__
[[Category:Software]][[Category:Bioinformatics]][[Category:NGS]]
+
[[Category:Software]][[Category:Biology]][[Category:ChIP-Seq]]
<!-- ########  Template Configuration ######## -->
+
{|<!--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|peaksplitter}}
 
|{{#vardefine:app|peaksplitter}}
 
|{{#vardefine:url|http://www.ebi.ac.uk/bertone/software.html}}
 
|{{#vardefine:url|http://www.ebi.ac.uk/bertone/software.html}}
<!--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-->
Line 34: Line 19:
  
 
Subdivision of ChIP-seq/ChIP-chip regions into discrete signal peaks.
 
Subdivision of ChIP-seq/ChIP-chip regions into discrete signal peaks.
<!--Location-->
+
<!--Modules-->
{{App_Location|app={{#var:app}}|{{#var:ver}}}}
+
==Environment Modules==
==Available Versions==
+
Run <code>module spider {{#var:app}}</code> to find out what environment modules are available for this application.
* 1.0
+
==System Variables==
{{#if: {{#var: mod}}|==Running the application using modules==
+
* HPC_{{uc:{{#var:app}}}}_DIR - installation directory
{{App_Module|app={{#var:app}}|intel={{#var:intel}}|mpi={{#var:mpi}}}}|}}
 
 
{{#if: {{#var: exe}}|==How To Run==
 
{{#if: {{#var: exe}}|==How To Run==
 
|}}
 
|}}
Line 47: Line 31:
 
{{#if: {{#var: pbs}}|==PBS Script Examples==
 
{{#if: {{#var: pbs}}|==PBS Script Examples==
 
See the [[{{PAGENAME}}_PBS]] page for {{#var: app}} PBS script examples.|}}
 
See the [[{{PAGENAME}}_PBS]] page for {{#var: app}} PBS script examples.|}}
{{#if: {{#var: policy}}|==Usage policy==
+
{{#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)
 
|}}
 
|}}

Latest revision as of 20:19, 12 August 2022

Description

peaksplitter website  

Subdivision of ChIP-seq/ChIP-chip regions into discrete signal peaks.

Environment Modules

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

System Variables

  • HPC_PEAKSPLITTER_DIR - installation directory