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Could I use variantEval to evaluate somatic mutation calling by mutect2?
I have a basic question about VariantEval? could I use this methods to evaluate somatic mutation from tumor? I tried with default parameter: even there are more than 40K lines mutations passed filter, VariantEvalonly report about 1K variants in the callset. I am trying to understand why VariantEval get so few, what is the filter VariantEval use? How do I tell how these mutations are filtered out by VariantEval?
Thanks a lot for help,