Commits · a2da3720bda2e1801443515989f4b40f097f1ae0 · SVdetection / cnvpipelines

Aug 06, 2018
- Remove unused genotyping rule · a2da3720
  Floreal Cabanettes authored 6 years ago
  
  a2da3720
- Fix log filenames · 4a1cfad1
  Floreal Cabanettes authored 6 years ago
  
  4a1cfad1
- Make script executable · 2dd074ab
  Floreal Cabanettes authored 6 years ago
  
  2dd074ab
- Add logs · 94947ee1
  Floreal Cabanettes authored 6 years ago
  
  94947ee1
- Try fix: move script in file and run it with shell · 9705f19b
  Floreal Cabanettes authored 6 years ago
  
  9705f19b
- Revert "Fix pindel command" · 640474a5
  Floreal Cabanettes authored 6 years ago
  
  This reverts commit f5639d2d.
  640474a5
- Fix pindel command · 5c75940b
  Floreal Cabanettes authored 6 years ago
  
  5c75940b
- Use regions in pindel command · da35bb3f
  Floreal Cabanettes authored 6 years ago
  
  da35bb3f
- removing duplicate calls from pindel · d9dd88e1
  Thomas Faraut authored 6 years ago and Floreal Cabanettes committed 6 years ago
  
  d9dd88e1
- Fix type of data · 9b65b121
  Floreal Cabanettes authored 6 years ago
  
  9b65b121
- Fix typo · cfc46d52
  Floreal Cabanettes authored 6 years ago
  
  cfc46d52
- Split pindel staff by regions · 7520fbc3
  Floreal Cabanettes authored 6 years ago
  
  7520fbc3
Aug 03, 2018
- updating lib · e4f84832
  Thomas Faraut authored 6 years ago
  
  e4f84832
- . is now PASS in the FILTER column of any filtered vcf · 794b0dd5
  Thomas Faraut authored 6 years ago
  
  794b0dd5
Aug 02, 2018
- Update submodules to latest · be99ccf4
  Floreal Cabanettes authored 6 years ago
  
  be99ccf4
Jul 30, 2018
- Remove nstretch file from popsim parameters · a4599c24
  Floreal Cabanettes authored 6 years ago
  
  a4599c24
- Remove also fai file · d21d3343
  Floreal Cabanettes authored 6 years ago
  
  d21d3343
- Try fix: remove raw reference once final one is build · a70595d4
  Floreal Cabanettes authored 6 years ago
  
  a70595d4
Jul 25, 2018
- Make bwa bams (before markduplicate) as temporary files · cd2e0a6a
  Floreal Cabanettes authored 6 years ago
  
  cd2e0a6a
Jul 23, 2018
- Fix genomestrip rerun · dc13d884
  Floreal Cabanettes authored 6 years ago
  
  dc13d884
Jul 20, 2018
- Fix crash · 5163583f
  Floreal Cabanettes authored 6 years ago
  
  5163583f
- Fix chromosomes with no reads for lumpy · 96f3d4d0
  Floreal Cabanettes authored 6 years ago
  
  96f3d4d0
- Fix syntax · 7fd9cbca
  Floreal Cabanettes authored 6 years ago
  
  7fd9cbca
- Try another approach to fix the problem · 76fd6d52
  Floreal Cabanettes authored 6 years ago
  
  76fd6d52
- Fix syntax · 0f7dda0c
  Floreal Cabanettes authored 6 years ago
  
  0f7dda0c
- Fix output file not found as input · ed501c4d
  Floreal Cabanettes authored 6 years ago
  
  ed501c4d
Jul 19, 2018
- Fix insert size distro: change to the 100000 first reads instead of reads of a... · 754a702c
  Floreal Cabanettes authored 6 years ago
  
  Fix insert size distro: change to the 100000 first reads instead of reads of a region to fix bug if regions is composed only by N
  754a702c
- Fix reference : use absolute path · 29cd4f16
  Floreal Cabanettes authored 6 years ago
  
  29cd4f16
Jul 18, 2018
- Fix simulation workflow · 83d4c223
  Floreal Cabanettes authored 6 years ago
  
  83d4c223
- Fix simulation workflow · ab701991
  Floreal Cabanettes authored 6 years ago
  
  ab701991
- Fix simulation workflow · bbfbaf74
  Floreal Cabanettes authored 6 years ago
  
  bbfbaf74
- Make nb_inds param required for simulation + fix snk syntax · ada50400
  Floreal Cabanettes authored 6 years ago
  
  ada50400
- Fix rule name overlap · 83387ccc
  Floreal Cabanettes authored 6 years ago
  
  83387ccc
- Fix bugs due to new chromosomes filtering · b58a72b9
  Floreal Cabanettes authored 6 years ago
  
  b58a72b9
Jul 06, 2018
- - change filter to noFilter (by default filtering is done) · cea5dca8
  Thomas Faraut authored 6 years ago
  
  - simplify gcmaskbed and lcmaskebed (erferencebundle) - Update submodule snakecnv/lib to latest
  cea5dca8
Jul 04, 2018
- nstrech bug corrected · 8b7c6c80
  Thomas Faraut authored 6 years ago
  
  8b7c6c80
- Fix nstretches rule · a236335e
  Floreal Cabanettes authored 6 years ago
  
  a236335e
Jul 03, 2018
- Remove message from snk (done in the wrapper · 121d676e
  Floreal Cabanettes authored 6 years ago
  
  121d676e
- Change chromosomes filter: filter by size · cd6f17e8
  Floreal Cabanettes authored 6 years ago
  
  cd6f17e8
- removing natsort and adding a message specifying the chromosomes · dca833d4
  Thomas Faraut authored 6 years ago
  
  dca833d4

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