Commits · 24e97ccb0dae18eee596a2de45de53978751db03 · R3 / legacy / bedtools2

26 Jan, 2015 1 commit
- K closest finally working; chrom name conventions test change · 24e97ccb
  Neil Kindlon authored Jan 25, 2015
  
  24e97ccb
31 Dec, 2014 4 commits
- Merge branch 'master' of https://github.com/nkindlon/bedtools2 · f9fbaac7
  Neil Kindlon authored Dec 31, 2014
  
  f9fbaac7
- Fixed bug164, closest runs slower with -id · 4983727f
  Neil Kindlon authored Dec 31, 2014
  
  4983727f
- goof in mdb -k 2 example. · df4e52be
  arq5x authored Dec 30, 2014
  
  df4e52be
- bigger font · 9fdb22fe
  arq5x authored Dec 30, 2014
  
  9fdb22fe
30 Dec, 2014 4 commits
- change order · 823a1fce
  arq5x authored Dec 30, 2014
  
  823a1fce
- typo · e194c15c
  arq5x authored Dec 30, 2014
  
  e194c15c
- updates to closest's docs · ab663c49
  arq5x authored Dec 30, 2014
  
  ab663c49
- fix conflict · d736f16f
  arq5x authored Dec 30, 2014
  
  d736f16f
29 Dec, 2014 1 commit
- Merge pull request #163 from nkindlon/master · b3bcab11
  Aaron Quinlan authored Dec 29, 2014
```
Fixed bug157: ties not prevented by -iu/-id
```
  b3bcab11
23 Dec, 2014 1 commit
- Fixed bug157: ties not prevented by -iu/-id · effc83ef
  Neil Kindlon authored Dec 22, 2014
  
  effc83ef
22 Dec, 2014 1 commit
- allow closest ties that don't overlap. · 90af6a76
  arq5x authored Dec 22, 2014
  
  90af6a76
21 Dec, 2014 2 commits

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

Aaron Quinlan authored Dec 21, 2014

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 Dec 21, 2014
```
Corrected error in reporting amount of overlap (issue #150)
```
d8e5ba51

20 Dec, 2014 3 commits
- Removed test debugging files from repository · 26618897
  Neil Kindlon authored Dec 19, 2014
  
  26618897
- Removed large closest tests from repository · e94c559e
  Neil Kindlon authored Dec 19, 2014
  
  e94c559e
- More sort order unit tests for chromsweep and closest; bug fixes and minor enhancements · 4422985d
  Neil Kindlon authored Dec 19, 2014
  
  4422985d
19 Dec, 2014 1 commit
- fixes to tutorial · 92b9249a
  arq5x authored Dec 18, 2014
  
  92b9249a
18 Dec, 2014 7 commits
- [BUG] fix for issue #140. chromosome boundaries not properly handled when slop... · b7ceea48
  arq5x authored Dec 18, 2014
```
[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 Dec 18, 2014
  
  e63d83e5
- Issue 123. Correct genomecov glyph. Thanks to @tdhock for the catch. · dabde359
  arq5x authored Dec 18, 2014
  
  dabde359
- [BUG] Fix for issue #153. makewindows -s should not be required with -b. · 0f4652dc
  arq5x authored Dec 18, 2014
  
  0f4652dc
- Forgot a new test file for closest · 2a2ae0cd
  Neil Kindlon authored Dec 17, 2014
  
  2a2ae0cd
- Merge branch 'master' of https://github.com/nkindlon/bedtools2 · cf21ba58
  Neil Kindlon authored Dec 17, 2014
  
  cf21ba58
- Bug fixes for closest and bug 155 · 436e6f4e
  Neil Kindlon authored Dec 17, 2014
  
  436e6f4e
17 Dec, 2014 1 commit
- Fix for issue #155 · 49a35985
  Tommaso Leonardi - farm authored Dec 17, 2014
  
  49a35985
07 Dec, 2014 3 commits
- changes for request #125: return non-zero on errors. · 50ae7528
  Neil Kindlon authored Dec 07, 2014
  
  50ae7528
- Added tleonardi's changes for bug 150 re: overlap bases with -split in intersect · b70b6caf
  Neil Kindlon authored Dec 07, 2014
  
  b70b6caf
- Fix for bug 150, closest hangs with -d and tie first mode · d819c40d
  Neil Kindlon authored Dec 06, 2014
  
  d819c40d
06 Dec, 2014 4 commits
- Cleaned up error message for sort order detection of missing chrom · a2cacdf7
  Neil Kindlon authored Dec 06, 2014
  
  a2cacdf7
- Updated jaccard unit test to reflect chromsweep change · b561a2f4
  Neil Kindlon authored Dec 05, 2014
  
  b561a2f4
- Correcting merge conflicts in NewChromsweep.h and .cpp · 758cd6a1
  Neil Kindlon authored Dec 05, 2014
  
  758cd6a1
- Detect differently ordered files in chromsweep and closest. Merged Fisher changes. · 4c7213c5
  Neil Kindlon authored Dec 05, 2014
  
  4c7213c5
02 Dec, 2014 4 commits
- Corrected error in reporting amount of overlap (issue #150) · 1db6b685
  Tommaso Leonardi - farm authored Dec 02, 2014
  
  1db6b685
- update NewChromSweep signature to support fisher. May have conflicts with... · 6ae90161
  arq5x authored Dec 02, 2014
```
update NewChromSweep signature to support fisher. May have conflicts with @nkindlon's upcoming changes. Will resolve then.
```
  6ae90161
- Merge branch 'brentp-fisher-include' · 205db6a6
  arq5x authored Dec 01, 2014
  
  205db6a6
- merge conflicts. integrate @brentp's nice improvments to fisher. · cf911bfa
  arq5x authored Dec 01, 2014
  
  cf911bfa
01 Dec, 2014 1 commit
- Merge pull request #149 from daler/master · fc7d185b
  Aaron Quinlan authored Dec 01, 2014
```
fix formatting of fisher table
```
  fc7d185b
28 Nov, 2014 1 commit
- fix formatting of fisher table · 89805de6
  daler authored Nov 28, 2014
  
  89805de6
26 Nov, 2014 1 commit
- tuning, testing and docs for fisher · ed4e8a9a
  Brent Pedersen authored Nov 26, 2014
  
  ed4e8a9a