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Daniel von Rhein

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    Daniel von Rhein commented,

    1. Community
    2. Somatic
    3. Mutect2 guide for multiple lanes?

    Simply merge your fastq files into one big fastq-file. In Linux, this could look like this zcat DS-bkm-085-N_L00{1,2,3,4,5,6,7}_RG.fastq | gzip > DS-bkm-085-N_merged_RG.fastq  

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    Daniel von Rhein created a post,

    Forced calling of somatic variants reveals variants with label PASS

    1. Community
    2. Somatic

    Dear community, I am performing somatic variant calling using Mutect2 (GATK version 4.1.5) on synthetic cell-free DNA data of a small tumor panel (8kb). Data is deeply sequenced (~50000x) and reads...

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