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 days ago by
United States
lhaiyan310 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 • 160 views
ADD COMMENTlink modified 6 days ago by Biostar ♦♦ 20 • written 11 days ago by lhaiyan310

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 10 days ago by cpad01121.7k
Please log in to add an answer.


Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 684 users visited in the last hour