Difference between revisions of "Cutadapt"

Revision as of 18:09, 10 August 2012

Description

cutadapt removes adapter sequences from high-throughput sequencing data. This is usually necessary when the read length of the sequencing machine is longer than the molecule that is sequenced, for example when sequencing microRNAs.

Required Modules

modules documentation

Serial

cutadapt

System Variables

HPC_{{#uppercase:cutadapt}}_DIR - installation directory
HPC_CUTADAPT_BIN - executable directory

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 __NOEDITSECTION__
 [[Category:Software]][[Category:Bioinformatics]][[Category:NGS]]
+{|<!--Main settings - REQUIRED-->
-{|
-<!--Main settings - REQUIRED-->
 |{{#vardefine:app|cutadapt}}
 |{{#vardefine:url|http://code.google.com/p/cutadapt/}}
-<!--Compiler and MPI settings - OPTIONAL -->
 |{{#vardefine:exe|}} <!--Present manual instructions for running the software -->
 |{{#vardefine:conf|}} <!--Enable config wiki page link - {{#vardefine:conf|1}} = ON/conf|}} = OFF-->
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 |{{#vardefine:citation|}} <!--Enable Reference/Citation section -->
 |}
-<!-- ########  Template Body ######## -->
 <!--Description-->
 {{#if: {{#var: url}}|
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 ===Serial===
 *{{#var:app}}
+==System Variables==
+* HPC_{{#uppercase:{{#var:app}}}}_DIR - installation directory
 * HPC_CUTADAPT_BIN - executable directory
 {{#if: {{#var: exe}}|==How To Run==