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Yifat Geffen

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Latest activity by Yifat Geffen
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    Yifat Geffen created a post,

    mutect2-PoN creation

    Hello, As part of our run of https://app.terra.bio/#workspaces/help-gatk/Somatic-SNVs-Indels-GATK4/workflows best practice workflows. we started by creating a PoN using version 4.1.6.0. However, si...

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    Yifat Geffen commented,

    Yes figured it out, Thank you, Samual

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    Yifat Geffen commented,

    Sure, the GATK version is: gatk4-somatic-cnvs/cnv_somatic_panel_workflow:1.4.0 The failed task is the CollectCounts The error log- 2020/04/26 13:42:51 Starting container setup. 2020/04/26 13:42:54 ...

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    Yifat Geffen created a post,

    Error running GATK CNV PoN workflow

    Hello, I am getting the following error once running the GATK4 standard CNV PoN creation workflow. The error states: Input files reference and reads have incompatible contigs: No overlapping contig...