v2.1.9
- Adjust output filter of
read_utils.align_and_fix()to remove marked pcr duplicates, mapped singletons, supplementary (chimeric) alignments, secondary alignments, and improperly paired reads. single-end reads are allowed through if mapped.
read_utils.align_and_fix() to remove marked pcr duplicates, mapped singletons, supplementary (chimeric) alignments, secondary alignments, and improperly paired reads. single-end reads are allowed through if mapped.