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Older
VERSION 2.0.1
1. Added the ability to retain UCSC browser track/browser headers in BED files.
VERSION 2.0
1. Sped up the file parsing. ~10-20% increase in speed.
2. Created reportBed() as a common method in the bedFile class. Cleans up the code quite nicely.
3. Added the ability to compare BED files accounting for strandedness.
4. Paired-end intersect.
5. Fixed bug that prevented overlaps from being reported when the overlap fraction requested is 1.0
VERSION 1.2, 04/27/2009. (1eb06115bdf3c49e75793f764a70c3501bb53f33)
1. Added subtractBed.
A. Fixed bug that prevented "split" overlaps from being reported.
B. Prevented A from being reported if >=1 feature in B completely spans it.
2. Added linksBed.
3. Added the ability to define separate windows for upstream and downstream to windowBed.
VERSION 1.1, 04/23/2009. (b74eb1afddca9b70bfa90ba763d4f2981a56f432)
Initial release.