Optimizing mutect/sarek for somatic substitution variant calling

I am doing variant calling on tumor/normal pairs but I am interested exclusively on missense variants. I am using mutect2 and sarek2. I have been going through the parameters but was wondering if anyone has suggestions on what parameters I should be looking at in order to improve the specificity.

mutect2 tumor-normal sarek variant-calling

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updated 1.8 years ago by Ram

• written 1.8 years ago by ramiro.barrantes •

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