Commits · 71eb51833468d6072ee46f80d6109dacab7c47cf · Mirrors / biopet.biopet

Feb 03, 2015
- Change to option types · 71eb5183
  Peter van 't Hof authored 10 years ago
  
  71eb5183
- No null returns at files and strings · ffc5158b
  Peter van 't Hof authored 10 years ago
  
  ffc5158b
- Name change · 29f9b30f
  Peter van 't Hof authored 10 years ago
  
  29f9b30f
- Implemented addMultisampleJobs method · 5f8a8375
  Peter van 't Hof authored 10 years ago
  
  5f8a8375
- Switch to new multisample part · a9f86490
  Peter van 't Hof authored 10 years ago
  
  a9f86490
- Added addMultisampleJobs method · 944b9af0
  Peter van 't Hof authored 10 years ago
  
  944b9af0
- Fix for -sample commandline argument · ebe731f3
  Peter van 't Hof authored 10 years ago
  
  ebe731f3
Feb 02, 2015
- made creating bam file with function createFile(*.bam) · a42f82e6
  Sander van der Zeeuw authored 10 years ago
  
  a42f82e6
Jan 30, 2015
- Fix verion to version · e0cd4cdd
  Wai Yi Leung authored 10 years ago
  
  e0cd4cdd
- Aligner BWA typo and Mapping clean paths · ccd0ed71
  Wai Yi Leung authored 10 years ago
  
  ccd0ed71
- fixed output_dir name bug · ea210687
  Sander van der Zeeuw authored 10 years ago
  
  ea210687
- Add notes on input - output compression · a08964e0
  bow authored 10 years ago
  
  a08964e0
- Use AsyncFastqWriter instead of BasicFastqWriter · 33f6e6d7
  bow authored 10 years ago
  
  33f6e6d7
Jan 29, 2015
- Add output annotation to sync tool stats output · 0d3e053a
  bow authored 10 years ago
  
  0d3e053a
- Remove unused import · 131f4a6f
  bow authored 10 years ago
  
  131f4a6f
- Use sync tool and update its wrapper · 96d44ee9
  bow authored 10 years ago
  
  96d44ee9
- Remove old sync script and its wrapper · 32d55edd
  bow authored 10 years ago
  
  32d55edd
- Fixes in summary, newline and introduce RPKMonly option to generate rpkm files.. · ccf09c1a
  Wai Yi Leung authored 10 years ago
  
  ccf09c1a
- Add version comment · 32731cbe
  Peter van 't Hof authored 10 years ago
  
  32731cbe
- bug fix in Carp pipeline · 1d0235fe
  Sander van der Zeeuw authored 10 years ago
  
  1d0235fe
- Added changes for new sampling handling · 7734e7d3
  Sander van der Zeeuw authored 10 years ago
  
  7734e7d3
- bug fixes in carp pipeline · 002c7f8f
  Sander van der Zeeuw authored 10 years ago
  
  002c7f8f
- bug fixes for macs2 wrapper · dbff8c07
  Sander van der Zeeuw authored 10 years ago
  
  dbff8c07
- Fix args · 41264b83
  Peter van 't Hof authored 10 years ago
  
  41264b83
- Fix scala docs format error · 2d0f6129
  Peter van 't Hof authored 10 years ago
  
  2d0f6129
- Added wigToBigWig extension · b7ace90c
  Peter van 't Hof authored 10 years ago
  
  b7ace90c
Jan 28, 2015
- Update on the pipeline, streamline and minimize the required arguments taken from the commandline · 8a670218
  Wai Yi Leung authored 10 years ago
  
  8a670218
- fix scala docs (again) · b61616ea
  Peter van 't Hof authored 10 years ago
  
  b61616ea
- Fix scala docs · 9371bf0f
  Peter van 't Hof authored 10 years ago
  
  9371bf0f
- Renaming values · 33f456b9
  Peter van 't Hof authored 10 years ago
  
  33f456b9
- Renaming values · bbd005c3
  Peter van 't Hof authored 10 years ago
  
  bbd005c3
Jan 27, 2015
- Switch Gatk pipeline and Basty to new multisample classes · 91e72434
  Peter van 't Hof authored 10 years ago
  
  91e72434
- Renames and adds scala docs · 49ba8c53
  Peter van 't Hof authored 10 years ago
  
  49ba8c53
- Adds finalBamFile function · c18e88d9
  Peter van 't Hof authored 10 years ago
  
  c18e88d9
- Mask yamsvp code · 89b2c3cd
  Peter van 't Hof authored 10 years ago
  
  89b2c3cd
- Move defaults · 4b16b7cd
  Peter van 't Hof authored 10 years ago
  
  4b16b7cd
- Switch defaults to a def instead of a var · fed34592
  Peter van 't Hof authored 10 years ago
  
  fed34592
- Remove Queue command args · f60b77cc
  Peter van 't Hof authored 10 years ago
  
  f60b77cc
- CNV pipeline for Exome · 45776fbc
  Wai Yi Leung authored 10 years ago
  
  45776fbc
- Remove queue args from pipeline · 449202bd
  Peter van 't Hof authored 10 years ago
  
  449202bd