renyongzhe

Maybe reads contained breakpoint were filtered. In such a scenario which a mismatch occurred beside the breakpoint, all kmer contained the mismatch and the breakpoint would not be traced back...

> https://github.com/bm2-lab/pTuneos/blob/e6cfd0e1b57bf04fe60baee40efe4f3b0c8d56f3/src/core/VariantCallingFormat/VCFprocessor.py#L72 > > For INDELs, it seems that no Consequence is missense_variant ? I think so. The Consequence is always frameshift or some else.