Bugfixes for new softclipping behavior and splice junction filtering.
- In v1.2.0 the filter
--max_intron
was incorrectly implemented inbookend condense
, producing a crash - Default behavior for
bookend elr --data_type ONT
now assumes start and end tags on all reads bookend elr
now does not require softclipping to recognize a start tag passed in the read name or with the argument-s
- Swapped
bookend elr --remove_noncanonical
for--allow_noncanonical
, making discarding noncanonical splice junctions default behavior