Keep only reads whose mate maps to the same contig or is unmapped
Keep only reads that have a mate that maps to the same contig (RNEXT is "="), is single ended (not 0x1) or has an unmapped mate (0x8).
See MappedReadFilter for criteria defining an unmapped read.
See these additional references.
Return to top
General Documentation |
Tool Docs Index Tool Documentation Index |
GATK version 22.214.171.124 built at Wed, 30 Jan 2019 10:21:04 +0530.