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
- 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
- Make variantcaller public · 04b80825
  Peter van 't Hof authored 10 years ago
  
  04b80825
- 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
- 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
- fix bug · a26063f4
  Peter van 't Hof authored 10 years ago
  
  a26063f4
- 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 even more unit tests, now 1408 for gatk pipeline, sadly no 1337 · 17c6f86b
  Peter van 't Hof authored 10 years ago
  
  17c6f86b
- Added place holders for summary · 14d93e73
  Peter van 't Hof authored 10 years ago
  
  14d93e73
- Merge branch 'develop' into feature-shiva · 4dd8d4f0
  Peter van 't Hof authored 10 years ago
  
  4dd8d4f0
- 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
- Merge branch 'patch-mutisample_summary' into 'develop' · 1571f046
  bow authored 10 years ago
  
  Patch mutisample summary See merge request !112
  1571f046
- 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