Luca Mologni posted a comment on discussion General Discussion

Hi all, I am analyzing amplicon deep-seq data, going for rare variants. While I've always run LoFreqFilter with default strand bias filtering (multiple test - FDR), now I would like to filter on a specific SB threshold. Can you advise on reasonable value? Should I consider SB=0 as the only true variants? For example, how do you see this: DP=12219;AF=0.009657;SB=5;DP4=822,11273,11,107 thanks Luca