The frontline support team will be unavailable to answer questions on April 15th and 17th 2019. We will be back soon after. Thank you for your patience and we apologize for any inconvenience!
How to view only the variants that are present in multiple MuTect VCF files?
I have several vcf files generated by MuTect comparing tumor to matched normal samples. Is there a way to generate a list or vcf file of the variants that are present in all or many of the samples? Something along the lines of: "these variants are in all of the samples," or "these variants are shared in 2 samples" and so on.
I tried vcf-isec on the MuTect vcf files, but I received a warning about the column names not matching (i.e. 1-Normal and 1-Tumor) and the output file was 28 bytes of unreadable characters.
Any help is appreciated, thank you.