Commits · dc680647b0d57cd109e6d0415a782f48f586dfd4 · R3 / legacy / bedtools2

Oct 26, 2011
- Undo previous. Dumb. · dc680647
  Aaron authored 13 years ago
  
  dc680647
- Tweaked closestBed help for -D · 88595a33
  Aaron authored 13 years ago
  
  88595a33
- Merge branch 'master' of github.com:arq5x/bedtools · b2659260
  Aaron authored 13 years ago
  
  b2659260
- reserve space up front for chromsweep · 0df75e5e
  Aaron authored 13 years ago
  
  0df75e5e
- Merge pull request #9 from jakebiesinger/master · fdf2f98d
  Aaron Quinlan authored 13 years ago
  
  Signed distance for closestBed
  fdf2f98d
Oct 25, 2011
- User can specify one of three orientations (a,b,ref) · 9713b9fb
  Jake Biesinger authored 13 years ago
  
  9713b9fb
- Oops. Extra ; · a65203c8
  Jake Biesinger authored 13 years ago
  
  a65203c8
- Fix typo in closestBed: -S for opposite strands, not -s · 0e7be15e
  Jake Biesinger authored 13 years ago
  
  0e7be15e
- Added a signed distance option (-D) to closestBed · e59f85d4
  Jake Biesinger authored 13 years ago
  
  e59f85d4
Oct 24, 2011
- chromsweep now obeys -s and -S · a5b2d831
  Aaron authored 13 years ago
  
  a5b2d831
- chromsweep no longer overloads results p_q on chrom change. · 5f8020b4
  Aaron authored 13 years ago
  
  5f8020b4
Oct 21, 2011
- Tweaked Makefile for proper zlib inclusion · d2fdf4e7
  Aaron authored 13 years ago
  
  d2fdf4e7
Oct 11, 2011
- getBamBlocks no longer splits on D CIGAR ops when not wanted. · 6817f60a
  Aaron authored 13 years ago
  
  6817f60a
Oct 07, 2011
- Merge pull request #8 from daler/master · ca6fed36
  Aaron Quinlan authored 13 years ago
  
  -sm -> -Sm
  ca6fed36
- windowBed -sm -> -Sm · 666d5edf
  daler authored 13 years ago
  
  666d5edf
Sep 30, 2011
- Minor updates. · dbae600a
  Aaron authored 13 years ago
  
  dbae600a
- Version 2.12.3 · 66d9796d
  Aaron authored 13 years ago
  
  66d9796d
Sep 29, 2011
- fixed -bed in intersectBed with gzipped -b. Thanks to @daler. · ce430ed1
  Aaron authored 13 years ago
  
  ce430ed1
Sep 28, 2011
- -bed now behaves when using bam input in intersectBed. · 5f125633
  Aaron authored 13 years ago
  
  5f125633
Sep 23, 2011
- Release 2.13.2 · 5794cae0
  Aaron authored 13 years ago
  
  5794cae0
- Improved detection of faulty GFF features. · c3f206b5
  Aaron authored 13 years ago
  
  c3f206b5
- Fixed mouse.mm9.genome. Thanks to Charles Plessy. · 420b66ab
  Aaron authored 13 years ago
  
  420b66ab
Sep 22, 2011
- Fixed major bug in intersectBed -split. Thanks to Sol Katzman. · e818f468
  Aaron authored 13 years ago
  
  e818f468
Sep 16, 2011
- removed unused attributes in chromsweep · 2e3c8f96
  Aaron authored 13 years ago
  
  2e3c8f96
- Reworked the nullBed logic. · 6b08d4b5
  Aaron authored 13 years ago
  
  6b08d4b5
- clean up chromsweep interface · c8cd5158
  Aaron authored 13 years ago
  
  c8cd5158
- Moved nullBed reset to GetNextBed · f7b297ff
  Aaron authored 13 years ago
  
  f7b297ff
- Updated README · 28a92d12
  Aaron authored 13 years ago
  
  28a92d12
- Updated README · 5a79210e
  Aaron authored 13 years ago
  
  5a79210e
- Updated README · e0d96029
  Aaron authored 13 years ago
  
  e0d96029
- Updated README · 4bcb6fb5
  Aaron authored 13 years ago
  
  4bcb6fb5
- Added newline before version.h EOF · 7889a020
  Aaron authored 13 years ago
  
  7889a020
- Added new -sorted option to intersectBed. No memory and filthy fast. · 4f951770
  Aaron authored 13 years ago
  
  4f951770
- Gussy. · 0eb0f045
  Aaron authored 13 years ago
  
  0eb0f045
- chromsweep is a proper tool. Now to make it an iterable class. · 5f480366
  Aaron authored 13 years ago
  
  5f480366
- chromsweep is now a python-style generator. Big smile\! · 4f6253a0
  Aaron authored 13 years ago
  
  4f6253a0
Sep 15, 2011
- chromsweep demo · b4928906
  Aaron authored 13 years ago
  
  b4928906
- gcB no longer requires a genome file for BAM. New chromsweep tool. · 2db206ca
  Aaron authored 13 years ago
  
  2db206ca
Sep 14, 2011
- Changed error message when BAM is not qeury sorted in pairToBed · 8a63b8d7
  Aaron authored 13 years ago
  
  8a63b8d7
Sep 11, 2011
- Added Seek and Rewind (destroy?) to BedFile. · 2de3d386
  Aaron authored 13 years ago
  
  2de3d386