Commits · 326a21e5453ed8671831ecdef81a7260e8b64f05 · Mirrors / biopet.biopet

Jan 29, 2016
- switch to core rscript extension · 326a21e5
  Peter van 't Hof authored 9 years ago
  
  326a21e5
- fix code warnings · 33aa9cd8
  Peter van 't Hof authored 9 years ago
  
  33aa9cd8
- Added meta exon counts to pipeline · c294fbef
  Peter van 't Hof authored 9 years ago
  
  c294fbef
- Fixed scope · 62ff2fb2
  Peter van 't Hof authored 9 years ago
  
  62ff2fb2
Jan 28, 2016
- Merge remote-tracking branch 'remotes/origin/develop' into feature-measure_modules · 29aebb21
  Peter van 't Hof authored 9 years ago
  
  # Conflicts: # public/gentrap/src/main/scala/nl/lumc/sasc/biopet/pipelines/gentrap/extensions/CustomVarScan.scala
  29aebb21
- Remove old unused code · 3cccfa85
  Peter van 't Hof authored 9 years ago
  
  3cccfa85
- Reformat · 90e97bb1
  Peter van 't Hof authored 9 years ago
  
  90e97bb1
- Added meta exons counts · 15df54b3
  Peter van 't Hof authored 9 years ago
  
  15df54b3
- Fixed gentrap tests · adf2e18f
  Peter van 't Hof authored 9 years ago
  
  adf2e18f
Jan 27, 2016
- Fix code warnings · 319f9274
  Peter van 't Hof authored 9 years ago
  
  319f9274
- Fixed createMetaExonCounts method · 9cae3390
  Peter van 't Hof authored 9 years ago
  
  9cae3390
- Combine overlapping genes in 1 thread · 8eae094a
  Peter van 't Hof authored 9 years ago
  
  8eae094a
- Merge branch 'feature-VarscanIntoShiva' into 'develop' · 52776123
  Wai Yi Leung authored 9 years ago
  
  Feature varscan into shiva Fixes #246 See merge request !308
  52776123
- Give mergeTables a extension · 0e7a025e
  Peter van 't Hof authored 9 years ago
  
  0e7a025e
- Added columnName to mergeTables · ddfa3aac
  Peter van 't Hof authored 9 years ago
  
  ddfa3aac
- Code improvement · 3427e4e1
  Peter van 't Hof authored 9 years ago
  
  3427e4e1
- fixed strandProtocol · 74d27805
  Peter van 't Hof authored 9 years ago
  
  74d27805
Jan 26, 2016
- Merge remote-tracking branch 'remotes/origin/develop' into feature-measure_modules · 94749303
  Peter van 't Hof authored 9 years ago
  
  94749303
- Fixed single exon transcripts · d9410da9
  Peter van 't Hof authored 9 years ago
  
  d9410da9
- Disabled countType by default · 6b636bb7
  Peter van 't Hof authored 9 years ago
  
  6b636bb7
Jan 25, 2016
- Fixed htseq-count · 95ebd1c9
  Peter van 't Hof authored 9 years ago
  
  95ebd1c9
- Implemented LazyCheck · 175a5f6a
  Peter van 't Hof authored 9 years ago
  
  175a5f6a
- Fixed config conversions · a43106b2
  Peter van 't Hof authored 9 years ago
  
  a43106b2
- Fixed compile warning · 413bbf93
  Peter van 't Hof authored 9 years ago
  
  413bbf93
- 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
- Merge remote-tracking branch 'remotes/origin/develop' into feature-VarscanIntoShiva · 88c9300a
  Peter van 't Hof authored 9 years ago
  
  Conflicts: public/biopet-extensions/src/main/scala/nl/lumc/sasc/biopet/extensions/varscan/Varscan.scala
  88c9300a
- Change version command · ae01e8be
  Peter van 't Hof authored 9 years ago
  
  ae01e8be
- Added tables and heatmaps to basecounter · 9184d047
  Peter van 't Hof authored 9 years ago
  
  9184d047
- Added tables and heatmaps to summary · dd71e82b
  Peter van 't Hof authored 9 years ago
  
  dd71e82b
- Remove old code · 20fe80d7
  Peter van 't Hof authored 9 years ago
  
  20fe80d7
- Implement baseCounter in pipeline · 6d9cf7ee
  Peter van 't Hof authored 9 years ago
  
  6d9cf7ee
- Optimize imports · 4024e04f
  Peter van 't Hof authored 9 years ago
  
  4024e04f
Jan 23, 2016
- Added tool extension · 43955a2f
  Peter van 't Hof authored 9 years ago
  
  43955a2f
- Added transcript counts · 293ee7bf
  Peter van 't Hof authored 9 years ago
  
  293ee7bf
- Add documentation · 7352807d
  Peter van 't Hof authored 9 years ago
  
  7352807d
Jan 22, 2016
- Added output files · 01be4515
  Peter van 't Hof authored 9 years ago
  
  01be4515
- Added gene exon and gene intron counts · b2718337
  Peter van 't Hof authored 9 years ago
  
  b2718337
- Fixed squish · eee1c5ca
  Peter van 't Hof authored 9 years ago
  
  eee1c5ca
- Added refflat support for base counting · 32adeb5e
  Peter van 't Hof authored 9 years ago
  
  32adeb5e