Commits · c0a2280c797b62692d9df9864f18fe8ee513e088 · Mirrors / biopet.biopet

Mar 04, 2015
- Switched Basty to Shiva · c0a2280c
  Peter van 't Hof authored 10 years ago
  
  c0a2280c
- fix bug · aab08ec8
  Peter van 't Hof authored 10 years ago
  
  aab08ec8
- fix bug on single sample calling · 96c33eab
  Peter van 't Hof authored 10 years ago
  
  96c33eab
- Make variantcaller public · 04b80825
  Peter van 't Hof authored 10 years ago
  
  04b80825
- Remove non gatk version of shiva from the protected exe · 9c83fc47
  Peter van 't Hof authored 10 years ago
  
  9c83fc47
- Added haplotypeLength option · 48f85cd4
  Peter van 't Hof authored 10 years ago
  
  48f85cd4
Mar 03, 2015
- Added freebayes · 1621e5cd
  Peter van 't Hof authored 10 years ago
  
  1621e5cd
- Fix default tags · e7aa783e
  Peter van 't Hof authored 10 years ago
  
  e7aa783e
- Minor changes to options · 6264c8cd
  Peter van 't Hof authored 10 years ago
  
  6264c8cd
- Added args to queue extension · 7825fcdf
  Peter van 't Hof authored 10 years ago
  
  7825fcdf
- Added excludeNonVariants · f4b0b185
  Peter van 't Hof authored 10 years ago
  
  f4b0b185
- Added check for incorrect variantcallers · 77f33770
  Peter van 't Hof authored 10 years ago
  
  77f33770
- Java jobs now show diffrent version output in summary · a332996e
  Peter van 't Hof authored 10 years ago
  
  a332996e
- Skipping header in general stats · ddc6e115
  Peter van 't Hof authored 10 years ago
  
  ddc6e115
- Fix file name · d39b64aa
  Peter van 't Hof authored 10 years ago
  
  d39b64aa
- Adding sample stats from vcfstats to summary · 640496b0
  Peter van 't Hof authored 10 years ago
  
  640496b0
- Added option to add all info and format fields · aa87e2ce
  Peter van 't Hof authored 10 years ago
  
  aa87e2ce
- Fix unit test · 9bca32a9
  Peter van 't Hof authored 10 years ago
  
  9bca32a9
- Added chromosome specific stats · 2cd2e497
  Peter van 't Hof authored 10 years ago
  
  2cd2e497
Mar 02, 2015
- Disabled some plots, we fix this later · 21a84095
  Peter van 't Hof authored 10 years ago
  
  21a84095
- Added function to acces the qscript from a summarizeable to add multiple... · a46493ef
  Peter van 't Hof authored 10 years ago
  
  Added function to acces the qscript from a summarizeable to add multiple summarizeables to the qscript
  a46493ef
- Added place holders for summary · 14d93e73
  Peter van 't Hof authored 10 years ago
  
  14d93e73
- Added unit test to gatk part of shiva · 71264da7
  Peter van 't Hof authored 10 years ago
  
  71264da7
- Added log4j to supress test output · af299a87
  Peter van 't Hof authored 10 years ago
  
  af299a87
- 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
- Fix name · ac9e3325
  Peter van 't Hof authored 10 years ago
  
  ac9e3325
- Adding basic unit tests · 4a71cc17
  Peter van 't Hof authored 10 years ago
  
  4a71cc17
- Change in scala docs · ca8089a0
  Peter van 't Hof authored 10 years ago
  
  ca8089a0
- Format change · 5109976c
  Peter van 't Hof authored 10 years ago
  
  5109976c
- Format change · a1f5260d
  Peter van 't Hof authored 10 years ago
  
  a1f5260d
- Updated comment · 725b91d5
  Peter van 't Hof authored 10 years ago
  
  725b91d5
Feb 27, 2015
- Added bcftools · 7cff2bf1
  Peter van 't Hof authored 10 years ago
  
  7cff2bf1
- Add todo's · e3b3e129
  Peter van 't Hof authored 10 years ago
  
  e3b3e129
- Add default function to add summarizable · 53c4ba81
  Peter van 't Hof authored 10 years ago
  
  53c4ba81
- Make samples and libraries Summarizable · 21182480
  Peter van 't Hof authored 10 years ago
  
  21182480
- Remove Config · 8cdbba34
  Peter van 't Hof authored 10 years ago
  
  8cdbba34
- 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
- Fix combine variants · f6841e2c
  Peter van 't Hof authored 10 years ago
  
  f6841e2c