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Can you use Mutect2 with non-human samples?
I want to use Mutect2 to subtract out variants present in a wild-type sample from variants present in an organism displaying a desired phenotype. Is Mutect2 appropriate for this? Can I use my wild-type .bam as the normal and the mutant phenotype .bam as the tumor? Do I need to create a PoN for this case? I only have two wild-type .bams