Commits · e66c1eecdb20a689b981d821019542b272e746eb · Mirrors / biopet.biopet

17 Apr, 2017 1 commit
- Merge pull request #77 from biopet/revert-69-fix-BIOPET-654 · e66c1eec
  Peter van 't Hof authored Apr 17, 2017
```
Revert "Remove default arguments"
```
  e66c1eec
16 Apr, 2017 5 commits
- Merge branch 'develop' into fix-BIOPET-368 · 9c66f418
  Peter van 't Hof authored Apr 16, 2017
  
  9c66f418
- Merge branch 'develop' into revert-69-fix-BIOPET-654 · 8ba7938f
  Peter van 't Hof authored Apr 16, 2017
  
  8ba7938f
- Merge pull request #74 from biopet/Fix-BIOPET-653 · 1f2295c2
  Peter van 't Hof authored Apr 16, 2017
```
Changed Bwa mem -M flag default to 'false'
```
  1f2295c2
- Revert "Remove default arguments" · 0211653b
  Peter van 't Hof authored Apr 16, 2017
  
  0211653b
- Adding correction for scattering · 077a520a
  Peter van 't Hof authored Apr 16, 2017
  
  077a520a
15 Apr, 2017 1 commit
- Adding gender calling haplotypecaller · 8916e812
  Peter van 't Hof authored Apr 15, 2017
  
  8916e812
14 Apr, 2017 13 commits
- Passing gender information to shivavariantcalling · 2465f250
  Peter van 't Hof authored Apr 14, 2017
  
  2465f250
- Merge branch 'develop' into Fix-BIOPET-653 · fabaff76
  Peter van 't Hof authored Apr 14, 2017
  
  fabaff76
- Merge pull request #73 from biopet/fix-BIOPET-649 · 811fe4c2
  Peter van 't Hof authored Apr 14, 2017
```
Fix CleverFixVCF memory issue
```
  811fe4c2
- Merge branch 'develop' into fix-BIOPET-649 · 5de27e08
  Peter van 't Hof authored Apr 14, 2017
  
  5de27e08
- Merge pull request #69 from biopet/fix-BIOPET-654 · 8fa9668a
  Peter van 't Hof authored Apr 14, 2017
```
Remove default arguments
```
  8fa9668a
- Merge branch 'develop' into fix-BIOPET-654 · 310bcfe4
  Peter van 't Hof authored Apr 14, 2017
  
  310bcfe4
- Merge pull request #71 from biopet/fix-BIOPET-651 · 8c5573ad
  Peter van 't Hof authored Apr 14, 2017
```
Adding a adapter cutoff for fastqc -> cutadapt
```
  8c5573ad
- Merge branch 'develop' into fix-BIOPET-649 · 988d35a6
  Peter van 't Hof authored Apr 14, 2017
  
  988d35a6
- Fixed code warnings · c347da53
  Ruben Vorderman authored Apr 14, 2017
  
  c347da53
- Disabled default M flag · 1a7d4610
  Ruben Vorderman authored Apr 14, 2017
  
  1a7d4610
- Merge branch 'develop' into fix-BIOPET-651 · 5e121141
  Peter van 't Hof authored Apr 14, 2017
  
  5e121141
- Merge branch 'develop' into fix-BIOPET-654 · 8c2a6ec8
  Peter van 't Hof authored Apr 14, 2017
  
  8c2a6ec8
- Merge pull request #68 from biopet/fix-BIOPET-640 · 865f33cf
  Peter van 't Hof authored Apr 14, 2017
```
Fixing report failures
```
  865f33cf
13 Apr, 2017 8 commits
- Merge remote-tracking branch 'origin' into fix-BIOPET-649 · 0aad3827
  Ruben Vorderman authored Apr 13, 2017
  
  0aad3827
- Added memorysize parameter · 07c78a35
  Ruben Vorderman authored Apr 13, 2017
  
  07c78a35
- Merge remote-tracking branch 'remotes/origin/develop' into fix-BIOPET-651 · d336ee60
  Peter van 't Hof authored Apr 13, 2017
  
  d336ee60
- Merge branch 'develop' into fix-BIOPET-654 · fa948c3a
  Peter van 't Hof authored Apr 13, 2017
  
  fa948c3a
- Merge branch 'develop' into fix-BIOPET-640 · b20ce2ee
  Peter van 't Hof authored Apr 13, 2017
  
  b20ce2ee
- Merge pull request #70 from biopet/fix-BIOPET-635 · abeeb845
  Peter van 't Hof authored Apr 13, 2017
```
Fixing small bug
```
  abeeb845
- Style fixes · beeb89dc
  Peter van 't Hof authored Apr 13, 2017
  
  beeb89dc
- Fixing small bug · de3e8ea9
  Peter van 't Hof authored Apr 13, 2017
  
  de3e8ea9
12 Apr, 2017 4 commits
- Adding a adapter cutoff for fastqc -> cutadapt · d6f1be2d
  Peter van 't Hof authored Apr 12, 2017
  
  d6f1be2d
- Remove default arguments · bf522ad0
  Peter van 't Hof authored Apr 12, 2017
  
  bf522ad0
- Merge branch 'develop' into fix-BIOPET-640 · 3b0bc744
  Peter van 't Hof authored Apr 12, 2017
  
  3b0bc744
- Fixing capture of failures · ce94a022
  Peter van 't Hof authored Apr 12, 2017
  
  ce94a022
11 Apr, 2017 8 commits
- Merge pull request #67 from biopet/CleverFixVCF · 7a95865b
  Peter van 't Hof authored Apr 11, 2017
```
Clever fix vcf
```
  7a95865b
- Merge branch 'develop' into CleverFixVCF · 701feb37
  Peter van 't Hof authored Apr 11, 2017
  
  701feb37
- Merge remote-tracking branch 'remotes/origin/develop' into fix-BIOPET-640 · 916fe0d4
  Peter van 't Hof authored Apr 11, 2017
  
  916fe0d4
- Merge pull request #62 from biopet/fix-BIOPET-639 · 91b0b5f5
  Peter van 't Hof authored Apr 11, 2017
```
Fixing fastqc plots
```
  91b0b5f5
- Match test VCF header · 132dcfd7
  Moustakas authored Apr 11, 2017
  
  132dcfd7
- Merge branch 'develop' into fix-BIOPET-639 · 9fd0a2f5
  Peter van 't Hof authored Apr 11, 2017
  
  9fd0a2f5
- Merge pull request #58 from biopet/fix-BIOPET-635 · 19f463b7
  Peter van 't Hof authored Apr 11, 2017
```
Option to skip printreads and give bqsr files to the variantcalller
```
  19f463b7
- Remove redundent queries · 85054669
  Peter van 't Hof authored Apr 11, 2017
  
  85054669