Hello,
I was wondering if Mutect2 accepts a "dbIndel" as input.
Something similar to the "--dbsnp" argument, but for known Indels.
I am currently using GATK bundle hg38 files in my Mutect2 pipeline :
dbsnp_146.hg38.vcf.gz is my "--dbsnp" argument
Could Mills_and_1000G_gold_standard.indels.hg38.vcf.gz be used as an argument value somewhere ?
Best regards