Changes between Initial Version and Version 1 of SNPPipelineTestManual


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Timestamp:
Dec 16, 2010 3:29:04 PM (15 years ago)
Author:
Leon Mei
Comment:

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  • SNPPipelineTestManual

    v1 v1  
     1== Resource ==
     2All source code can be downloaded at[http://www.bbmriwiki.nl/svn/ngs_pipelines/ http://www.bbmriwiki.nl/svn/ngs_pipelines/] 
     3
     4== Procedure ==
     5 1. ==== Obtain datasets ====
     6Download raw BGI FASTQ files from Grid or use the simulated files from Jeroen
     7
     8
     9 1. ==== Install tools  ====
     10
     11   * BWA
     12   * GATK
     13   * Picart
     14 1. ==== Configure pipeline  ====
     15Edit pipeline.properties to locate datasets and tools
     16
     17
     18 1. ==== Generate pipeline ====
     19Run /src/ngsscriptgenerator/NGSScriptGenerator.java to generate the pipeline scripts