Filter out reads that fail platform quality checks, are unmapped and represent secondary/supplementary alignments
Category Read Filters
OverviewFilter out reads that:
- Fail platform/vendor quality checks (0x200)
- Are unmapped (0x4)
- Represent secondary/supplementary alignments (0x100 or 0x800)
GATK version 220.127.116.11 built at 25-10-2019 02:10:54.
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