Question: how to extract the RD, AD, VAF information for the normal and tumor samples from the MuTect2 output vcf file?
gravatar for lhaiyan3
11 months ago by
United States
lhaiyan320 wrote:

Dear all:

I have the tumor-normal pair Mutect2 output VCF file. I want to get the DP, RD, AD and VAF information for both tumor and normal samples. Can anyone please give me some suggestions? Thanks very much.



mutect2 exom-seq • 590 views
ADD COMMENTlink modified 11 months ago by Biostar ♦♦ 20 • written 11 months ago by lhaiyan320

Please post example VCF records. In the mean time, refer to bcftools or snpsift manuals to extract info and format information from VCF.

ADD REPLYlink written 11 months ago by cpad01127.6k
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