Difference between revisions of "CNVkit"

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(Created page with "Category:Software {|<!--CONFIGURATION: REQUIRED--> |{{#vardefine:app|cnvkit}} |{{#vardefine:url|https://github.com/etal/cnvkit}} <!--CONFIGURATION: OPTIONAL (|1}} means it...")
 
 
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[[Category:Software]]
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[[Category:Software]][[Category:Phylogenetics]]
 
{|<!--CONFIGURATION: REQUIRED-->
 
{|<!--CONFIGURATION: REQUIRED-->
 
|{{#vardefine:app|cnvkit}}
 
|{{#vardefine:app|cnvkit}}
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<!--Modules-->
 
<!--Modules-->
==Required Modules==
+
==Environment Modules==
 
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Run <code>module spider {{#var:app}}</code> to find out what environment modules are available for this application.
===Serial===
 
* gcc/5.2.0
 
* {{#var:app}}
 
<!--
 
===Parallel (OpenMP)===
 
* intel
 
* {{#var:app}}
 
===Parallel (MPI)===
 
* intel
 
* openmpi
 
* {{#var:app}}
 
-->
 
 
==System Variables==
 
==System Variables==
* HPC_{{#uppercase:{{#var:app}}}}_DIR - installation directory
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* HPC_{{uc:{{#var:app}}}}_DIR - installation directory
* HPC_{{#uppercase:{{#var:app}}}}_BIN - executable directory
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* HPC_{{uc:{{#var:app}}}}_BIN - executable directory
  
 
<!--Configuration-->
 
<!--Configuration-->

Latest revision as of 13:50, 15 August 2022

Description

cnvkit website  

A command-line toolkit and Python library for detecting copy number variants and alterations genome-wide from targeted DNA sequencing.

Environment Modules

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

System Variables

  • HPC_CNVKIT_DIR - installation directory
  • HPC_CNVKIT_BIN - executable directory