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MuTect with hg38(GRCh38) reference

poojanarangpoojanarang Arizona State UniversityMember

I am trying to use Mutect with hg38 as reference to call somatic vatiants for Cancer and Normal data.

I could not find the required hg38 Cosmic vcf file in the help secteion for Mutect (http://www.broadinstitute.org/cancer/cga/mutect_run). The dbsnp vcf I am using is dbsnp_144.hg38.vcf from the hg38 bundle.

How can generate the cosmic vcf file for the hg38 bundle? Any help is appreciated.

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