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GATK3 MuTect2 homologous mapping filter & events
Hi, I'm using GATK3 MuTect2 to call Somatic variants and encountered filter called "clustered_events" and "homolougous_mapping_events".
By reading this thread i got some idea what "clustered_events" is.
As for "homologous_mapping_events" I've encountered this thread but couldn't catch the meanings.
Is variants marked as "homologous_mapping_events" when there are more than 3 events(SNV, Indels) in a single read(assembled haplotypes by MuTect2)?
And, am i correct with the interpretation of "events" as SNVs and Indels?