Difference between revisions of "BWA"

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m (Text replace - "{{#if: {{#var: mod}}|==Execution Environment and Modules== {{App_Module|app={{#var:app}}|intel={{#var:intel}}|mpi={{#var:mpi}}}}|}}" to "==Required Modules== modules documentation ===Serial=== *{{#var:app}}")
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INTEL - Version of the Intel Compiler e.g. "11.1"
 
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{|
 
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===Serial===
 
===Serial===
 
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==System Variables==
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* HPC_{{#uppercase:{{#var:app}}}}_DIR - installation directory
 
* HPC_BWA_BIN - executable directory
 
* HPC_BWA_BIN - executable directory
 
* HPC_BWA_MAN - manpage directory
 
* HPC_BWA_MAN - manpage directory
 
* HPC_BWA_DOC - documentation directory
 
* HPC_BWA_DOC - documentation directory
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{{#if: {{#var: conf}}|==Configuration==

Revision as of 17:47, 10 August 2012

Description

bwa website  

Burrows-Wheeler Aligner (BWA) is an efficient program that aligns relatively short nucleotide sequences against a long reference sequence such as the human genome. It implements two algorithms, bwa-short and BWA-SW. The former works for query sequences shorter than 200bp and the latter for longer sequences up to around 100kbp. Both algorithms do gapped alignment. They are usually more accurate and faster on queries with low error rates.

Required Modules

modules documentation

Serial

  • bwa

System Variables

  • HPC_{{#uppercase:bwa}}_DIR - installation directory
  • HPC_BWA_BIN - executable directory
  • HPC_BWA_MAN - manpage directory
  • HPC_BWA_DOC - documentation directory