I'm going to perform a somatic variant calling using tumor/normal paired experiment and
Varscan2 tool. Reading the documentation I have realised about this three filters available with the tool:
processSomatic. Anyone knows which one I should use to filter the somatic calls or any recommended workflow - best practices?
I've been further investigating and now I'm wondering if
VarScan2 is really supported and updated tool. I have read a loot of questions without answers across different repositories, like:
Do you have any experience using