I was using GATK4.1.5 to call somatic mutation using match normal mode. I found that it's hard to find the "af-only-gnomad.vcf.gz" file for parameter:
because I was using hg38 as the reference and the chromosome style is "chr1,chr2". I just wonder if there is any download link to acceess the compatible "af-only-gnomad.vcf.gz" for me to use?
Please sign in to leave a comment.