What's new in BEDTools 2.7.1
May 7, 2010
- Fixed a typo that caused some compilers to fail on closestBed.
New in BEDTools 2.6.1 (May 5, 2010)
- Fixed a careless command line parsing bug in coverageBed.
New in BEDTools 2.5.3 (Feb 27, 2010)
- The comparison of paired BAM alignments to BED files has been substantially improved. In some cases, there is a 95% reduction in run time.
- The BEDTools manuscript has been posted at Bioinformatics.
- BAM support. intersectBed and pairToBed support alignment files in BAM format.
- All BEDTools now also support "BED6+" formats. That is, all fields added after the 6th column (strand) will be passed through the tools. The first six columns are interpreted as the standard BED columns (chrom, start, end, name, score, strand). This allows one to use the full BED12 format as described on the UCSC browser or to use additional fields for custom annotations.
New in BEDTools 2.0 (May 15, 2009)
- Sped up the file parsing. ~10-20% increase in speed.
- Created reportBed() as a common method in the bedFile class.
- Cleans up the code quite nicely.
- Added the ability to compare BED files accounting for strandedness.
- Paired-end intersect.
- Fixed bug that prevented overlaps from being reported when the overlap fraction requested is 1.0