Commits · dc856bfae0a97f254e69f06e5772adc5df45ceae · Mirrors / biopet.biopet

Mar 09, 2015
- Fix on intermeditaite files · dc856bfa
  Peter van 't Hof authored 10 years ago
  
  dc856bfa
- Config name change · 8506c344
  Peter van 't Hof authored 10 years ago
  
  8506c344
Mar 07, 2015
- Adding scala docs · d81585ca
  Peter van 't Hof authored 10 years ago
  
  d81585ca
Mar 05, 2015
- Added scala docs for picard · 15e4e777
  Peter van 't Hof authored 10 years ago
  
  15e4e777
- Change output files handling · 3e44feaf
  Peter van 't Hof authored 10 years ago
  
  3e44feaf
Mar 04, 2015
- Switched Basty to Shiva · c0a2280c
  Peter van 't Hof authored 10 years ago
  
  c0a2280c
- remove unused import · 5e7634c1
  Peter van 't Hof authored 10 years ago
  
  5e7634c1
- Switch Basty to Shiva · ab50cd4f
  Peter van 't Hof authored 10 years ago
  
  ab50cd4f
- Rename pipelines · 99f18f74
  Peter van 't Hof authored 10 years ago
  
  99f18f74
- Remove non gatk version of shiva from the protected exe · 9c83fc47
  Peter van 't Hof authored 10 years ago
  
  9c83fc47
Mar 03, 2015
- fix bug · a26063f4
  Peter van 't Hof authored 10 years ago
  
  a26063f4
Mar 02, 2015
- Added even more unit tests, now 1408 for gatk pipeline, sadly no 1337 · 17c6f86b
  Peter van 't Hof authored 10 years ago
  
  17c6f86b
- Added unit test to gatk part of shiva · 71264da7
  Peter van 't Hof authored 10 years ago
  
  71264da7
- Added unit test to do some magic · f330f2f8
  Peter van 't Hof authored 10 years ago
  
  f330f2f8
- Added more tests · 68182a4a
  Peter van 't Hof authored 10 years ago
  
  68182a4a
Feb 27, 2015
- Add todo's · e3b3e129
  Peter van 't Hof authored 10 years ago
  
  e3b3e129
- Make samples and libraries Summarizable · 21182480
  Peter van 't Hof authored 10 years ago
  
  21182480
- Fix multisample namePrefix · 5513ff7e
  Peter van 't Hof authored 10 years ago
  
  5513ff7e
- Added summary to VcfStats · 9bfb4880
  Peter van 't Hof authored 10 years ago
  
  9bfb4880
- Added gvcf mode · 5c545796
  Peter van 't Hof authored 10 years ago
  
  5c545796
Feb 26, 2015
- Updated Executable · 73995acb
  Peter van 't Hof authored 10 years ago
  
  73995acb
- Added allele modes · 85554525
  Peter van 't Hof authored 10 years ago
  
  85554525
- Adding UnifiedGenotyper · 25ee758d
  Peter van 't Hof authored 10 years ago
  
  25ee758d
- Add gatk variantcalling with haplotypecaller · 3c2bd820
  Peter van 't Hof authored 10 years ago
  
  3c2bd820
- Added implicit List[File] · 285e2e4d
  Peter van 't Hof authored 10 years ago
  
  285e2e4d
- Moved to new package · 7c5cd789
  Peter van 't Hof authored 10 years ago
  
  7c5cd789
- Added IndelRealigner and BaseRecalibration · 4c2d0bf5
  Peter van 't Hof authored 10 years ago
  
  4c2d0bf5
- Add ShiveGatk · 0d7fce54
  Peter van 't Hof authored 10 years ago
  
  0d7fce54
Feb 18, 2015
- Rename data to settings · 73435d56
  Peter van 't Hof authored 10 years ago
  
  73435d56
Feb 16, 2015
- Added summaries · d523db6c
  Peter van 't Hof authored 10 years ago
  
  d523db6c
- Added summary framework to mapping and flexiprep · 0c3deab9
  Peter van 't Hof authored 10 years ago
  
  0c3deab9
- Fix on index ln methods · d125c2f3
  Peter van 't Hof authored 10 years ago
  
  d125c2f3
- Fix output dirs and set default single sample calling off · 1062e3ab
  Peter van 't Hof authored 10 years ago
  
  1062e3ab
- Remove variable IDE files · 50400d8c
  bow authored 10 years ago
  
  50400d8c
Feb 14, 2015
- Fix threads / memlimit · 52a36f28
  Peter van 't Hof authored 10 years ago
  
  52a36f28
Feb 13, 2015
- Fix outputdirs · 589d229b
  Peter van 't Hof authored 10 years ago
  
  589d229b
- Added test log4j.properties · 64397750
  Peter van 't Hof authored 10 years ago
  
  64397750
Feb 12, 2015
- Remove unneeded "/" · 54eccd0a
  Peter van 't Hof authored 10 years ago
  
  54eccd0a
- Rename afterGraph to beforeGraph · e5e03434
  Peter van 't Hof authored 10 years ago
  
  e5e03434
- Change outputDir to File · 8ca365cb
  Peter van 't Hof authored 10 years ago
  
  8ca365cb