Changes between Version 6 and Version 7 of SnpCallingPipeline


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Timestamp:
Sep 22, 2010 5:22:21 PM (8 years ago)
Author:
leon
Comment:

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  • SnpCallingPipeline

    v6 v7  
    4545
    4646=== 3) Alignment] ===
     47
     48'''The three commands in this section are identical. Copy&Paste error?'''
     49
    4750To align the reads to a reference genome the GATK uses BWA. The indices used for this step were already made for an earlier Galaxy project. GATK uses an own version of BWA which doesn’t support multiple threading yet. To overcome this problem alignment was performed using the standard BWA. The following command was executed:'''''''
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