Changes between Version 47 and Version 48 of SnpCallingPipeline


Ignore:
Timestamp:
Oct 18, 2010 4:51:17 AM (14 years ago)
Author:
Morris Swertz
Comment:

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  • SnpCallingPipeline

    v47 v48  
    11= SNP calling pipeline =
    22Status: Alpha
    3 
    43Authors: Freerk van Dijk, Morris Swertz
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    6 Based on [http://www.broadinstitute.org/gsa/wiki/index.php/The_Genome_Analysis_Toolkit Broad GATK pipeline].
    7 
    8 To perform the analysis as fast and good as possible the pipeline has been divided into several small processes. These processes are all numbered and can be found below, including commands, input and output files starting with pre-alignment and ending with variation calling & filtering.
    9 
     5This is the documentation of the BBMRI-NL snp calling pipeline based on the [http://www.broadinstitute.org/gsa/wiki/index.php/The_Genome_Analysis_Toolkit Broad GATK]. It consists of the following three workflows:
    106* SnpCallingPipeline/ReferencePreparation
    117* SnpCallingPipeline/AlignmentAndCleaning
    128* SnpCallingPipeline/VariantCalling
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    149== Schematic Overview ==
    1510
    … …  
    7772
    7873[[TOC(SnpCallingPipeline/ReferencePreparation,SnpCallingPipeline/AlignmentAndCleaning,SnpCallingPipeline/VariantCalling,inline,noheading)]]
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