Commits · 0ecd6778c4df06f603497d277ee09d380a18ceb5 · Mirrors / biopet.biopet

Feb 04, 2016
- Added gears to multi mapping · 0ecd6778
  Peter van 't Hof authored 9 years ago
  
  0ecd6778
- Added more methods to test · 95882d8e
  Peter van 't Hof authored 9 years ago
  
  95882d8e
Feb 02, 2016
- Fixed bug in Ln · 53cc2a4d
  Peter van 't Hof authored 9 years ago
  
  53cc2a4d
- Added md5 check to pipeline · f941cb35
  Peter van 't Hof authored 9 years ago
  
  f941cb35
Jan 27, 2016
- Code improvement · 3427e4e1
  Peter van 't Hof authored 9 years ago
  
  3427e4e1
Jan 25, 2016
- Skipped flexiprep stats when flexiprep is not executed · 800ad479
  Peter van 't Hof authored 9 years ago
  
  800ad479
- Fixed bug in report · b2156b2c
  Peter van 't Hof authored 9 years ago
  
  b2156b2c
- Change version command · ae01e8be
  Peter van 't Hof authored 9 years ago
  
  ae01e8be
Jan 20, 2016
- Fix compile issue · 8afdecfc
  Peter van 't Hof authored 9 years ago
  
  8afdecfc
- Fix bwa bug using freeVar=false · 42b5a991
  Wai Yi Leung authored 9 years ago
  
  42b5a991
- Revert "PindelVCF wrapper", does not belong to this branch · bba51033
  Wai Yi Leung authored 9 years ago
  
  This reverts commit 2b618795.
  bba51033
- PindelVCF wrapper · 2b618795
  Wai Yi Leung authored 9 years ago
  
  2b618795
- typo · 6073f6aa
  Sander van der Zeeuw authored 9 years ago
  
  6073f6aa
Jan 19, 2016
- Fixed unit tests · 30696cab
  Peter van 't Hof authored 9 years ago
  
  30696cab
- Added varscan_jar to test config · dd9a7060
  Peter van 't Hof authored 9 years ago
  
  dd9a7060
- Raise default memory for varscan · 10835803
  Peter van 't Hof authored 9 years ago
  
  10835803
- Added version to varscan · 3f85a446
  Peter van 't Hof authored 9 years ago
  
  (cherry picked from commit a13b0d1d)
  3f85a446
- Added version to varscan · a13b0d1d
  Peter van 't Hof authored 9 years ago
  
  a13b0d1d
- Fixed error message in bamutils · 3fb6b5f8
  Peter van 't Hof authored 9 years ago
  
  3fb6b5f8
- Fixed style · 8b099b94
  Peter van 't Hof authored 9 years ago
  
  8b099b94
- add varscan test to shiva variantcalling test · 86ad2593
  Sander van der Zeeuw authored 9 years ago
  
  86ad2593
- move varscan wrapper to extensions · ca40d875
  Sander van der Zeeuw authored 9 years ago
  
  ca40d875
- Update Cutadapt wrapper and style change (camelCaps instead of _) · 3049d572
  Wai Yi Leung authored 9 years ago
  
  3049d572
Jan 18, 2016
- Update Cutadapt wrapper · 564081d7
  Wai Yi Leung authored 9 years ago
  
  564081d7
- changes to get rid of reference calls · bb46c239
  Sander van der Zeeuw authored 9 years ago
  
  bb46c239
- delete file name file on exit of pipeline · 59923a55
  Sander van der Zeeuw authored 9 years ago
  
  59923a55
- change sample name in varscan vcf · 64325f97
  Sander van der Zeeuw authored 9 years ago
  
  64325f97
- remove function removeEmptyPile() · a35c3c9c
  Sander van der Zeeuw authored 9 years ago
  
  a35c3c9c
- added fix mpileup.py scripts to scripts dir in shiva · 7a5e1b5c
  Sander van der Zeeuw authored 9 years ago
  
  7a5e1b5c
- added fixmpileup script and removeEmptypile function · 328be9a6
  Sander van der Zeeuw authored 9 years ago
  
  328be9a6
Jan 15, 2016
- Rename camel caps to underscore · 793a34eb
  bow authored 9 years ago
  
  793a34eb
- Unify output bam names · a3009b39
  bow authored 9 years ago
  
  a3009b39
- bgzip piping went wrong fix with if stdout else > · 43748908
  Sander van der Zeeuw authored 9 years ago
  
  43748908
- generate dir for varscan · c22edcf3
  Sander van der Zeeuw authored 9 years ago
  
  c22edcf3
- add varscan to shiva variantcallers · 559881ed
  Sander van der Zeeuw authored 9 years ago
  
  559881ed
- Added test to summary core · 6e26a6ec
  Peter van 't Hof authored 9 years ago
  
  6e26a6ec
- Adding empty summary test · 6f7fe187
  Peter van 't Hof authored 9 years ago
  
  6f7fe187
- Optimize imports · 58369dd0
  Peter van 't Hof authored 9 years ago
  
  58369dd0
Jan 14, 2016
- Adding tests for input files for summary · 684fe7c8
  Peter van 't Hof authored 9 years ago
  
  684fe7c8
- Add test addSummarizable · 645895a0
  Peter van 't Hof authored 9 years ago
  
  645895a0