about MUTECT2

BogdanBogdan Palo Alto, CAMember ✭✭

Hi Sheila, and Geraldine,

when you have a minute for a quick question please : for somatic mutation calling, shall we use Mutect2, do we need to pre-process the samples (indel realignment, BSQR), or Mutect2 does it internally on BWA-MEM aligned reads and the pre-processing is not required ?

thanks,

bogdan

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