STAR_2.4.0g1
·
1155 commits
to master
since this release
Note: Mac pre-compiled binary has not been updated in in this release - will update next week.
New Features
- Added --alignSoftClipAtReferenceEnds No option which prevents soft clipping of alignments at the reference (chromosome) ends, for compatibility with Cufflinks/Cuffmerge.
- Added --outSAMflagOR, --outSAMflagAND options to set specific bits of the SAM FLAG.
- --sjdbFileChrStartEnd can now accept multiple files which will be concatenated.
- Added --sysShell option to specify path to bash, in cases where bash is not the default shell.
- --outBAMcompression default changed to 1, which apparently does not change deflation ratio, but is much faster.
- Added --outBAMsortingThreadN option to specify number of threads for BAM sorting. By default (0) it's equal to min(6,runThreadN).
Bug fixes
- Fixed a bug with output score (AS attribute) of some chimeric alignments.
- Fixed wrong output of chimeric junctions boundaries in the Chimeric.out.junction file.
- Fixed the header of the Log.progress.out .
- Fixed a bug that prevented output of transcriptomic alignments (--quantMode TranscriptomeSAM) with 1 base junction overhangs.
- Fixed static and dynamic Linux binaries from 2.4.0g1