Keep only reads with a valid alignment start
Category Read Filters
OverviewKeep only reads with a valid alignment start (POS larger than 0) or is unmapped.
See MappedReadFilter for criteria defining an unmapped read.
See these additional references.
GATK version 22.214.171.124-SNAPSHOT built at Fri, 24 Apr 2020 12:01:12 -0400.