Commits · 8af58a0b3a1ba166b2fdc28a33f81459e731aed0 · Mirrors / biopet.biopet

15 Jan, 2016 1 commit
- Fix input of bams to svcalling tools.. · 8af58a0b
  Wai Yi Leung authored Jan 15, 2016
  
  8af58a0b
14 Jan, 2016 2 commits
- Fix compile errors · e42f7355
  Wai Yi Leung authored Jan 14, 2016
  
  e42f7355
- Adding Pindel to ShivaSVCalling · d1384de8
  Wai Yi Leung authored Jan 14, 2016
  
  d1384de8
12 Jan, 2016 4 commits
- Adding the pindel wrapper to the extensions. Updated to support v0.2.5b8 · 7213a031
  Wai Yi Leung authored Jan 12, 2016
  
  7213a031
- Merge branch 'fix-toucan' into 'develop' · edbabec1
  Wai Yi Leung authored Jan 12, 2016
```
Fix short name



See merge request !303
```
  edbabec1
- Fix short name · d46354a7
  Peter van 't Hof authored Jan 12, 2016
  
  d46354a7
- Merge branch 'feature-gentrap_to_multisamplemapping' into 'develop' · e2126bad
  Wai Yi Leung authored Jan 12, 2016
```
Switch gentrap to multisample mapping

Fixes #256 

See merge request !299
```
  e2126bad
11 Jan, 2016 8 commits
- Merge branch 'feature-varda' into 'develop' · 3a13df98
  Peter van 't Hof authored Jan 11, 2016
```
Feature varda

fixes #208 

This is to track this branch in jenkins

See merge request !245
```
  3a13df98
- fix tiny setting · 9fbc2376
  Sander Bollen authored Jan 11, 2016
  
  9fbc2376
- Change gvcf input · 6ebf4f39
  Peter van 't Hof authored Jan 11, 2016
  
  6ebf4f39
- Merge branch 'fix-tophat' into 'develop' · 27236df5
  Wai Yi Leung authored Jan 11, 2016
```
Fix output file for tophat step

Still needs testing

See merge request !300
```
  27236df5
- Merge bed records · 7bedb39b
  Peter van 't Hof authored Jan 11, 2016
  
  7bedb39b
- Improved logging · 798f296b
  Peter van 't Hof authored Jan 11, 2016
  
  798f296b
- Disable report · 621ccaf4
  Peter van 't Hof authored Jan 11, 2016
  
  621ccaf4
- Style fix · 203a0c98
  Peter van 't Hof authored Jan 11, 2016
  
  203a0c98
10 Jan, 2016 1 commit
- Fixed type · bf11fd13
  Peter van 't Hof authored Jan 10, 2016
  
  bf11fd13
08 Jan, 2016 5 commits
- Code improvement · 26f84c6a
  Peter van 't Hof authored Jan 08, 2016
  
  26f84c6a
- Style changes · 96efe61e
  Peter van 't Hof authored Jan 08, 2016
  
  96efe61e
- Fix output file for tophat step · e3fd97af
  Peter van 't Hof authored Jan 08, 2016
  
  e3fd97af
- Style fix · a2c4d7bc
  Peter van 't Hof authored Jan 08, 2016
  
  a2c4d7bc
- Fixed rna metrics · 565f3979
  Peter van 't Hof authored Jan 08, 2016
  
  565f3979
06 Jan, 2016 9 commits
- Switch to multisample mapping · d9c88772
  Peter van 't Hof authored Jan 06, 2016
  
  d9c88772
- Merge branch 'feature-multisample_mapping' into 'develop' · d91e8f6f
  Wai Yi Leung authored Jan 06, 2016
```
Multisample mapping pipeline

Fixes #225 

See merge request !292
```
  d91e8f6f
- fix merge request issues · a161a802
  Sander Bollen authored Jan 06, 2016
  
  a161a802
- Merge remote-tracking branch 'remotes/origin/develop' into feature-multisample_mapping · 7d9ff889
  Peter van 't Hof authored Jan 06, 2016
  
  7d9ff889
- Fixed typo · fa4b60f8
  Peter van 't Hof authored Jan 06, 2016
  
  fa4b60f8
- Moved summaryFile · 4143a145
  Peter van 't Hof authored Jan 06, 2016
  
  4143a145
- Merge branch 'feature-sample_tags' into 'develop' · 0beb17fd
  Wai Yi Leung authored Jan 06, 2016
```
Added gender and groups to samples

Fix for #131 

See merge request !296
```
  0beb17fd
- Merge branch 'feature-generate_indexes' into 'develop' · 488594e1
  Wai Yi Leung authored Jan 06, 2016
```
Feature generate indexes

see also #187 

See merge request !211
```
  488594e1
- Merge branch 'feature-unit_tests_core' into 'develop' · 1921f894
  Wai Yi Leung authored Jan 06, 2016
```
Added unit tests to reference trait

Fixes #250

Also implemented improved test aggregation

See merge request !298
```
  1921f894
05 Jan, 2016 8 commits
- Change aggregation · 719d854f
  Peter van 't Hof authored Jan 05, 2016
  
  719d854f
- Fix temp files in mapping · 748dd6c2
  Peter van 't Hof authored Jan 05, 2016
  
  748dd6c2
- Fix scoverage aggregate · e21646ad
  Peter van 't Hof authored Jan 05, 2016
  
  e21646ad
- Fixed executable in test · 9e4144e8
  Peter van 't Hof authored Jan 05, 2016
  
  9e4144e8
- Merge remote-tracking branch 'origin' into feature-varda · 19bbb31c
  Sander Bollen authored Jan 05, 2016
  
  19bbb31c
- merge bed file to prevent massive files · 29ddfee6
  Sander Bollen authored Jan 05, 2016
  
  29ddfee6
- Moved tags to the "tags" key · 5edadca1
  Peter van 't Hof authored Jan 05, 2016
  
  5edadca1
- manwe wrapper fixes · 7bea0e95
  Sander Bollen authored Jan 05, 2016
  
  7bea0e95
04 Jan, 2016 2 commits
- Merge remote-tracking branch 'remotes/origin/develop' into feature-multisample_mapping · 6e4327e7
  Peter van 't Hof authored Jan 04, 2016
  
  6e4327e7
- Merge branch 'fix-scatter' into 'develop' · 59cdddd6
  bow authored Jan 04, 2016
```
Fixed scattering



See merge request !295
```
  59cdddd6