Commits · 1a20139991f65938a4e8386bad4e65cc42f9df71 · SVdetection / popsim

Jul 12, 2017
- Update jflow command builder to be compatible with the new implementation · 1a201399
  Floreal Cabanettes authored 7 years ago
  
  1a201399
Jul 11, 2017
- Allow to input genotype file with deletions already set · 0b79f4ea
  Floreal Cabanettes authored 7 years ago
  
  0b79f4ea
- Update popsim to the new pirs version · a2dd8a72
  Floreal Cabanettes authored 7 years ago
  
  a2dd8a72
Jun 30, 2017
- Replace vcf.VCFReader by pysam.VariantFile · 4b510898
  Floreal Cabanettes authored 7 years ago
  
  4b510898
- Fix log file to a file instead of stdout/err · 0341b710
  Floreal Cabanettes authored 7 years ago
  
  0341b710
Jun 29, 2017
- Add comment · bd7f6054
  Floreal Cabanettes authored 7 years ago
  
  bd7f6054
- Don't use X server · fec93440
  Floreal Cabanettes authored 7 years ago
  
  fec93440
- Returns exit status · c295497c
  Floreal Cabanettes authored 7 years ago
  
  c295497c
- Remove ungzipped vcf file · 80e9067d
  Floreal Cabanettes authored 7 years ago
  
  80e9067d
- Add minimum number of deletions to generate parameter · b45bc530
  Floreal Cabanettes authored 7 years ago
  
  b45bc530
- Make build_figures callable as a python module · ee7d12b3
  Floreal Cabanettes authored 7 years ago
  
  ee7d12b3
- Prevent deletions to be localized inside N stretches · f3598738
  Floreal Cabanettes authored 7 years ago
  
  f3598738
Jun 23, 2017
- Fix init defaults · bbce30a9
  Floreal Cabanettes authored 7 years ago
  
  bbce30a9
- Fix typo · 85a45270
  Floreal Cabanettes authored 7 years ago
  
  85a45270
- Make build_results compatible with Python 3.4 + code refactoring · 637271b2
  Floreal Cabanettes authored 7 years ago
  
  637271b2
- rename erase_output force_outputdir · aa2d6331
  Floreal Cabanettes authored 7 years ago
  
  aa2d6331
Jun 22, 2017
- Fix chromosoome for orphans · e40c74b6
  Floreal Cabanettes authored 7 years ago
  
  e40c74b6
- Update build pop to enable stdout/err redirecting · 74657bda
  Floreal Cabanettes authored 7 years ago
  
  74657bda
- Add init function to call build_pop as a module · 6427b4bd
  Floreal Cabanettes authored 7 years ago
  
  6427b4bd
Jun 21, 2017
- Improvements · dade90a4
  Floreal Cabanettes authored 7 years ago
  
  dade90a4
- Add chromosomes infos to confirmation task · 49f666d0
  Floreal Cabanettes authored 7 years ago
  
  49f666d0
- Add parallelisation for deletions positionning · 1da11cd1
  Floreal Cabanettes authored 7 years ago
  
  1da11cd1
- Some improvements · e4a96663
  Floreal Cabanettes authored 7 years ago
  
  e4a96663
Jun 20, 2017
- Remove unused import · 0465abac
  Floreal Cabanettes authored 7 years ago
  
  0465abac
- Add missing short options · d2be5ec3
  Floreal Cabanettes authored 7 years ago
  
  d2be5ec3
- Add threads for pirs · 767f84e9
  Floreal Cabanettes authored 7 years ago
  
  767f84e9
- Remove vawk and fix variants simulator · f030a6d0
  Floreal Cabanettes authored 7 years ago
  
  f030a6d0
- Replace vawk by python code · 26ee73b9
  Floreal Cabanettes authored 7 years ago
  
  26ee73b9
- Generate deletions positions and size with our algorithm instead of SVSim · a60719b5
  Floreal Cabanettes authored 7 years ago
  
  a60719b5
Jun 15, 2017
- Complete README · 38a86042
  Floreal Cabanettes authored 7 years ago
  
  38a86042
- Add stripplots option · dd063081
  Floreal Cabanettes authored 7 years ago
  
  dd063081
- Build figures using python without R · 0e4ecb7c
  Floreal Cabanettes authored 7 years ago
  
  0e4ecb7c
- Fix main function · e045a8a6
  Floreal Cabanettes authored 7 years ago
  
  e045a8a6
Jun 13, 2017
- Fix code · 4ad4b4c6
  Floreal Cabanettes authored 7 years ago
  
  4ad4b4c6
- xlsxwriter as optional dependency · 358f6d4c
  Floreal Cabanettes authored 7 years ago
  
  358f6d4c
Jun 09, 2017
- Remove unused check · 62de38ec
  Floreal Cabanettes authored 7 years ago
  
  62de38ec
- Exit if output dir exists · 2e6ff9d5
  Floreal Cabanettes authored 7 years ago
  
  2e6ff9d5
- refactoring · 11f5eaa5
  Floreal Cabanettes authored 7 years ago
  
  11f5eaa5
- refactoring · 139946d6
  Floreal Cabanettes authored 7 years ago
  
  139946d6
- Refactoring of build_pop script · fa876d5b
  Floreal Cabanettes authored 7 years ago
  
  fa876d5b

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