Commits · fd66bc96ab384280c3c247f845d6461c18f537e2 · SVdetection / cnvpipelines

Dec 04, 2018
- - delly threads downgraded to 6 · fd66bc96
  Thomas Faraut authored 6 years ago
  
  - genomestrip .Nstrech file not any more required - pindel max_xrange 2 removed - excluded is now preformed for each sample
  fd66bc96
- upgrading lib · b0c65c57
  Thomas Faraut authored 6 years ago
  
  b0c65c57
Oct 23, 2018
- now 8 cores for delly · 24b86bc5
  Thomas Faraut authored 6 years ago
  
  24b86bc5
- removing self._rerun_tools(tools) · b4182d5e
  Thomas Faraut authored 6 years ago
  
  b4182d5e
Oct 19, 2018
- adding batch id to record id in parse · 9408978e
  Thomas Faraut authored 6 years ago
  
  9408978e
- updating snakecnv/lib · fc048fbe
  Thomas Faraut authored 6 years ago
  
  fc048fbe
Oct 05, 2018
- patch for getting chromsomes in get_batches · 272bf2f3
  Thomas Faraut authored 6 years ago
  
  272bf2f3
Sep 27, 2018
- updating the lib submodule · 491fa286
  Thomas Faraut authored 6 years ago
  
  491fa286
- - implementing a pure pysam bacoverage instead of the pysamstats implementation · cd6a9624
  Thomas Faraut authored 6 years ago
  
  - window width for the detection of high coverage is now 500bp - simplifying gzip of pindel files
  cd6a9624
Aug 24, 2018
- Update summary ipynb · 13fc368c
  Floreal Cabanettes authored 6 years ago
  
  13fc368c
- Fix summary rule · 2fedb544
  Floreal Cabanettes authored 6 years ago
  
  2fedb544
- Fix input · c3d1baaa
  Floreal Cabanettes authored 6 years ago
  
  c3d1baaa
- Fix variable name · c11772ca
  Floreal Cabanettes authored 6 years ago
  
  c11772ca
- Fix syntac · d1f9176a
  Floreal Cabanettes authored 6 years ago
  
  d1f9176a
- Add summary · a54b7305
  Floreal Cabanettes authored 6 years ago
  
  a54b7305
Aug 23, 2018
- Fix if dry run done before run · 965d4e7e
  Floreal Cabanettes authored 6 years ago
  
  965d4e7e
- Easy dry run if only 1 batch · ee8cb8b6
  Floreal Cabanettes authored 6 years ago
  
  ee8cb8b6
- upgrading lib · 5923e4f3
  Thomas Faraut authored 6 years ago
  
  5923e4f3
Aug 21, 2018
- test · 6ba7f9d6
  Thomas Faraut authored 6 years ago
  
  6ba7f9d6
- . and PASS are now PASS · 7919032e
  Thomas Faraut authored 6 years ago
  
  7919032e
Aug 08, 2018
- Fix type · d15924cc
  Floreal Cabanettes authored 6 years ago
  
  d15924cc
- Fix windows · 0cb9738e
  Floreal Cabanettes authored 6 years ago
  
  0cb9738e
- Fix syntax · 160c1432
  Floreal Cabanettes authored 6 years ago
  
  160c1432
- Change pindel window size to 10M with a overlap change from 100K to 50K · 3fb68ce8
  Floreal Cabanettes authored 6 years ago
  
  3fb68ce8
Aug 07, 2018
- Update submodules to latest · c0a12e42
  Floreal Cabanettes authored 6 years ago
  
  c0a12e42
- Simulation: allow to use custom frequencies for variants · 0393a803
  Floreal Cabanettes authored 6 years ago
  
  0393a803
Aug 06, 2018
- update lib · 965e9ae8
  Thomas Faraut authored 6 years ago
  
  965e9ae8
- Fix for simulation · b9b0bf11
  Floreal Cabanettes authored 6 years ago
  
  b9b0bf11
- Fix for snakemake >= 5.0 · 9d265049
  Floreal Cabanettes authored 6 years ago
  
  9d265049
- Fix typo · 3fc63cf8
  Floreal Cabanettes authored 6 years ago
  
  3fc63cf8
- Fix pindel command · efb63afe
  Floreal Cabanettes authored 6 years ago
  
  efb63afe
- Make command much readable · cd9d7c85
  Floreal Cabanettes authored 6 years ago
  
  cd9d7c85
- Remove bad wildcard · 3814f78e
  Floreal Cabanettes authored 6 years ago
  
  3814f78e
- Remove bad wildcard · f7544daa
  Floreal Cabanettes authored 6 years ago
  
  f7544daa
- Fix: pindel detect all variants type grouped · 16f1c496
  Floreal Cabanettes authored 6 years ago
  
  16f1c496
- Fix folder name · ae98056b
  Floreal Cabanettes authored 6 years ago
  
  ae98056b
- Pindel windows: place in a subdir, remove subdir after merge · dea55fc2
  Floreal Cabanettes authored 6 years ago
  
  dea55fc2
- Move windowed files in subdir for pindel (try fixing problem...) · 89eba335
  Floreal Cabanettes authored 6 years ago
  
  89eba335
- Remove unused genotyping rule · a2da3720
  Floreal Cabanettes authored 6 years ago
  
  a2da3720
- Fix log filenames · 4a1cfad1
  Floreal Cabanettes authored 6 years ago
  
  4a1cfad1

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