Commits · 2d8c5a4e0fc9e6b6ba015980c632fb34ec5fb1f4 · R3 / legacy / bedtools2

Jan 02, 2015
- Update README.md · 2d8c5a4e
  Aaron Quinlan authored 10 years ago
  
  2d8c5a4e
- Setting Release-Version v2.22.1 · a596d5af
  arq5x authored 10 years ago
  
  v2.22.1
  
  a596d5af
- fix tutorial makefile · 60111a38
  arq5x authored 10 years ago
  
  60111a38
- update help messages. · 41193721
  arq5x authored 10 years ago
  
  41193721
- [DOC] update docs for closest and intersect. · 330bfb5c
  arq5x authored 10 years ago
  
  330bfb5c
Jan 01, 2015
- Merge branch 'master' of https://github.com/arq5x/bedtools2 · a6e1ecba
  arq5x authored 10 years ago
  
  a6e1ecba
- Merge pull request #165 from nkindlon/master · 6744fd0c
  Aaron Quinlan authored 10 years ago
  
  Fixed bug164, closest runs slower with -id
  6744fd0c
- updates to closest docs · 042294d9
  arq5x authored 10 years ago
  
  042294d9
Dec 31, 2014
- Fixed bug164, closest runs slower with -id · 4983727f
  Neil Kindlon authored 10 years ago
  
  4983727f
- goof in mdb -k 2 example. · df4e52be
  arq5x authored 10 years ago
  
  df4e52be
- bigger font · 9fdb22fe
  arq5x authored 10 years ago
  
  9fdb22fe
Dec 30, 2014
- change order · 823a1fce
  arq5x authored 10 years ago
  
  823a1fce
- typo · e194c15c
  arq5x authored 10 years ago
  
  e194c15c
- updates to closest's docs · ab663c49
  arq5x authored 10 years ago
  
  ab663c49
- fix conflict · d736f16f
  arq5x authored 10 years ago
  
  d736f16f
Dec 29, 2014
- Merge pull request #163 from nkindlon/master · b3bcab11
  Aaron Quinlan authored 10 years ago
  
  Fixed bug157: ties not prevented by -iu/-id
  b3bcab11
Dec 23, 2014
- Fixed bug157: ties not prevented by -iu/-id · effc83ef
  Neil Kindlon authored 10 years ago
  
  effc83ef
Dec 22, 2014
- allow closest ties that don't overlap. · 90af6a76
  arq5x authored 10 years ago
  
  90af6a76
Dec 21, 2014

Merge pull request #152 from nkindlon/master · 7fd03d39

Aaron Quinlan authored 10 years ago

detect different sort order and chrom name conventions in sorted and unsorted intersect, and closest. Merged Fisher changes and other arq5x  changes.

7fd03d39

Merge pull request #151 from tleonardi/master · d8e5ba51
Aaron Quinlan authored 10 years ago
```
Corrected error in reporting amount of overlap (issue #150)
```
d8e5ba51

Dec 20, 2014
- Removed test debugging files from repository · 26618897
  Neil Kindlon authored 10 years ago
  
  26618897
- Removed large closest tests from repository · e94c559e
  Neil Kindlon authored 10 years ago
  
  e94c559e
- More sort order unit tests for chromsweep and closest; bug fixes and minor enhancements · 4422985d
  Neil Kindlon authored 10 years ago
  
  4422985d
Dec 19, 2014
- fixes to tutorial · 92b9249a
  arq5x authored 10 years ago
  
  92b9249a
Dec 18, 2014
- [BUG] fix for issue #140. chromosome boundaries not properly handled when slop... · b7ceea48
  arq5x authored 10 years ago
  
  [BUG] fix for issue #140. chromosome boundaries not properly handled when slop values are negative. Thanks to @acdaugherty for the catch.
  b7ceea48
- Fix for issue #145. -f was incorrectly set to 0.0 when using -labels, -intervals, or -names. · e63d83e5
  arq5x authored 10 years ago
  
  e63d83e5
- Issue 123. Correct genomecov glyph. Thanks to @tdhock for the catch. · dabde359
  arq5x authored 10 years ago
  
  dabde359
- [BUG] Fix for issue #153. makewindows -s should not be required with -b. · 0f4652dc
  arq5x authored 10 years ago
  
  0f4652dc
- Forgot a new test file for closest · 2a2ae0cd
  Neil Kindlon authored 10 years ago
  
  2a2ae0cd
- Merge branch 'master' of https://github.com/nkindlon/bedtools2 · cf21ba58
  Neil Kindlon authored 10 years ago
  
  cf21ba58
- Bug fixes for closest and bug 155 · 436e6f4e
  Neil Kindlon authored 10 years ago
  
  436e6f4e
Dec 17, 2014
- Fix for issue #155 · 49a35985
  Tommaso Leonardi - farm authored 10 years ago
  
  49a35985
Dec 07, 2014
- changes for request #125: return non-zero on errors. · 50ae7528
  Neil Kindlon authored 10 years ago
  
  50ae7528
- Added tleonardi's changes for bug 150 re: overlap bases with -split in intersect · b70b6caf
  Neil Kindlon authored 10 years ago
  
  b70b6caf
- Fix for bug 150, closest hangs with -d and tie first mode · d819c40d
  Neil Kindlon authored 10 years ago
  
  d819c40d
Dec 06, 2014
- Cleaned up error message for sort order detection of missing chrom · a2cacdf7
  Neil Kindlon authored 10 years ago
  
  a2cacdf7
- Updated jaccard unit test to reflect chromsweep change · b561a2f4
  Neil Kindlon authored 10 years ago
  
  b561a2f4
- Correcting merge conflicts in NewChromsweep.h and .cpp · 758cd6a1
  Neil Kindlon authored 10 years ago
  
  758cd6a1
- Detect differently ordered files in chromsweep and closest. Merged Fisher changes. · 4c7213c5
  Neil Kindlon authored 10 years ago
  
  4c7213c5
Dec 02, 2014
- Corrected error in reporting amount of overlap (issue #150) · 1db6b685
  Tommaso Leonardi - farm authored 10 years ago
  
  1db6b685