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tan qiang

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Latest activity by tan qiang
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    tan qiang commented,

    1. Tool Index
    2. 4.3.0.0
    3. CalculateContamination

    Tutorial#11136 ```https://software.broadinstitute.org/gatk/documentation/article?id=11136``` Article#11127 ```https://software.broadinstitute.org/gatk/documentation/article?id=11127```   I am inter...

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    tan qiang created a post,

    Detailed reason for filtering by FilterMutectCalls

    1. Community
    2. Documentation Questions

    I don't know if there is a document that describes the filter flag in detail. Of course, I can find some information in the head of vcf. But for me as a beginner，It's still hard to understand. ...

    • tan qiang
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    tan qiang created a post,

    mutect2 turm-only pipeline missing low AF

    Answered
    1. Community
    2. General Discussion

    I'm trying to use Mutect2  turm-only pipeline to call somatic ,the sample  is ctDNA.I'm really confused: the low AF is missing,I can't get the right result (different from the results of the verif...

    • tan qiang
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    tan qiang created a post,

    clean bam in Workflows

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    1. Community
    2. General Discussion

    I checked some posts and found that the current process （somatic） of  'clean bam ' is bwa -> sort -> markdup -> reorder -> BQSR but in gatk3 ,the process is  bwa -> sort -> markdup -> reorder ->Ind...

    • tan qiang
    • 2 followers
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