Commits · 31b7ebfc67677a16d8b5a042f2f3f95abca3bbac · Mirrors / biopet.biopet

Apr 27, 2016
- Changed baserecalibrator to biopet config values · 31b7ebfc
  Peter van 't Hof authored 8 years ago
  
  31b7ebfc
- Added biopet config values to general gatk trait · d90ba499
  Peter van 't Hof authored 8 years ago
  
  d90ba499
- Fixed type · a148d687
  Peter van 't Hof authored 8 years ago
  
  a148d687
- Convert analysis_type to abstract value · 1aeba6d1
  Peter van 't Hof authored 8 years ago
  
  1aeba6d1
- Added biopet config values · 59399b66
  Peter van 't Hof authored 8 years ago
  
  59399b66
- Setting default for haplotypecaller · e430eb82
  Peter van 't Hof authored 8 years ago
  
  e430eb82
- Disable gathering · ec59d68a
  Peter van 't Hof authored 8 years ago
  
  ec59d68a
- Added int lists and double list to config conversions · dbc5cfbd
  Peter van 't Hof authored 8 years ago
  
  dbc5cfbd
- Added method to get vcf index file · dd9036c8
  Peter van 't Hof authored 8 years ago
  
  dd9036c8
Apr 26, 2016
- Fixed reference · c640dc87
  Peter van 't Hof authored 8 years ago
  
  c640dc87
- Adding dbsnp automatic again · a39f363c
  Peter van 't Hof authored 8 years ago
  
  a39f363c
- Removed complete dependency from protected modules · 9e5c572d
  Peter van 't Hof authored 8 years ago
  
  9e5c572d
- Make dict required for all gatk tools · 47e33420
  Peter van 't Hof authored 8 years ago
  
  47e33420
- Fixed reference and added version · 5b09944b
  Peter van 't Hof authored 8 years ago
  
  5b09944b
- Fixed cycle bug · b80652eb
  Peter van 't Hof authored 8 years ago
  
  b80652eb
- Added gatk jar · 0986121f
  Peter van 't Hof authored 8 years ago
  
  0986121f
- Fix compile errors · 62fef674
  Peter van 't Hof authored 8 years ago
  
  62fef674
- Fixed default scattercount · b9a543ec
  Peter van 't Hof authored 8 years ago
  
  b9a543ec
- Remove short name methods · 967dd7ee
  Peter van 't Hof authored 8 years ago
  
  967dd7ee
- Added objects again · 9f3e8d4d
  Peter van 't Hof authored 8 years ago
  
  9f3e8d4d
- Switch to biopet scattering · 298ca175
  Peter van 't Hof authored 8 years ago
  
  298ca175
- Convert gatk extensions · 85bf7a10
  Peter van 't Hof authored 8 years ago
  
  85bf7a10
- Convert to biopet extensions · e3d5cd51
  Peter van 't Hof authored 8 years ago
  
  e3d5cd51
- Exclude gatk-tools · 90695fac
  Peter van 't Hof authored 8 years ago
  
  90695fac
- Disable scattering · 3fc3e1c5
  Peter van 't Hof authored 8 years ago
  
  3fc3e1c5
- Remove copy class · 7570f55a
  Peter van 't Hof authored 8 years ago
  
  7570f55a
- Converting extensions · 7bc8a4cc
  Peter van 't Hof authored 8 years ago
  
  7bc8a4cc
Apr 25, 2016
- Added exclusion for gatk tools · 231d179a
  Peter van 't Hof authored 8 years ago
  
  231d179a
- Merge branch 'fix-samplenames_qiime' into 'develop' · 05629c68
  bow authored 8 years ago
  
  Fix samplenames qiime Samples in qiime may not contain `_`, this now get replaces to `-` for qiime only. Also fixed small bug in vcfstats summary. See merge request !380
  05629c68
- Format fixed · 307e9c87
  Peter van 't Hof authored 8 years ago
  
  307e9c87
- Fixed try · 7f45b476
  Peter van 't Hof authored 8 years ago
  
  7f45b476
- replace _ for - · 9c1b8526
  Peter van 't Hof authored 8 years ago
  
  9c1b8526
- Merge branch 'feature-fixStarOptions' into 'develop' · e8000f2f
  bow authored 8 years ago
  
  Feature fix star options See merge request !368
  e8000f2f
- Merge branch 'fix-vcffilter_test' into 'develop' · 27a9477b
  bow authored 8 years ago
  
  Fixed vcffilter test Fixed failing tests See merge request !379
  27a9477b
- Merge branch 'fix-vcfstatssummary' into 'develop' · c43478cd
  Peter van 't Hof authored 8 years ago
  
  fix #329 See merge request !377
  c43478cd
- Format fix · fa078a8f
  Peter van 't Hof authored 8 years ago
  
  fa078a8f
- Fixed vcffilter test · 827d518b
  Peter van 't Hof authored 8 years ago
  
  827d518b
Apr 22, 2016
- Change to flatmap · 86cc3923
  Peter van 't Hof authored 8 years ago
  
  86cc3923
- Change arg to multiarg · 3828a150
  Peter van 't Hof authored 8 years ago
  
  3828a150
- Remove unused import · a8748725
  Peter van 't Hof authored 8 years ago
  
  a8748725