Commits · 750fb26329a128cec884064303f12325768aa754 · biowdl / tasks

Jul 28, 2022
- Merge pull request #303 from biowdl/sage · 750fb263
  Cats authored 2 years ago
  
  Updates for WGSinCancerDiagnostics
  Unverified
  
  750fb263
Jul 18, 2022
- fix linting issue · 743e4e06
  Cats authored 2 years ago
  
  743e4e06
- update changelog · 9625c84b
  Cats authored 2 years ago
  
  9625c84b
- Merge branch 'develop' into sage · f5f81419
  Cats authored 2 years ago
  
  Unverified
  
  f5f81419
- fix typo in star GenomeGenerate parameter_meta · cbd6de84
  Cats authored 2 years ago
  
  cbd6de84
Jul 04, 2022
- Merge pull request #302 from biowdl/gridss_annotate · c4b13ec6
  Cats authored 2 years ago
  
  Add GT to gridss results in AnnotateSvTypes
  Unverified
  
  c4b13ec6
- Merge branch 'develop' into gridss_annotate · c91a657c
  Cats authored 2 years ago
  
  Unverified
  
  c91a657c
- Add GT to gridss results in AnnotateSvTypes · 0f3cb30d
  Cats authored 2 years ago
  
  0f3cb30d
- Merge pull request #301 from biowdl/gridss_annotate · 1c1cd589
  Cats authored 2 years ago
  
  Add a task to add SVTYPE annotations to GRIDSS results
  Unverified
  
  1c1cd589
- update changelog · 3af704d6
  Cats authored 2 years ago
  
  3af704d6
Jul 01, 2022
- increase memory for bcftools sort · 8e7ca0ce
  Cats authored 2 years ago
  
  8e7ca0ce
- give bcftools sort more time · 760f89e9
  Cats authored 2 years ago
  
  760f89e9
Jun 30, 2022
- fix duoble .bgz and and index to output · 358c946d
  Cats authored 2 years ago
  
  358c946d
- detect if compressed · 4e2a09e1
  Cats authored 2 years ago
  
  4e2a09e1
- fix output name · 39af0ad7
  Cats authored 2 years ago
  
  39af0ad7
- fix heredoc · 01aa41d2
  Cats authored 2 years ago
  
  01aa41d2
Apr 08, 2022
- typo · 1b4238c6
  Cats authored 2 years ago
  
  1b4238c6
- copy paste error · 87bb3c4f
  Cats authored 2 years ago
  
  87bb3c4f
- add task for sv type annotation of gridss results · 1c02ce1e
  Cats authored 2 years ago
  
  1c02ce1e
Mar 18, 2022
- Merge pull request #300 from biowdl/fix_gridss_tbi · 25f49471
  Cats authored 3 years ago
  
  run tabix if vcf index is missing in gridss
  Unverified
  
  25f49471
- Merge remote-tracking branch 'origin/develop' into fix_gridss_tbi · 688f9851
  Cats authored 3 years ago
  
  688f9851
- update changelog · 173bb2e6
  Cats authored 3 years ago
  
  173bb2e6
- run tabix if vcf index is missing in gridss · ac55982a
  Cats authored 3 years ago
  
  ac55982a
Mar 09, 2022
- Remove duplicate options for markduplicates · 9ca13a0a
  Ruben Vorderman authored 3 years ago
  
  9ca13a0a
Mar 08, 2022
- fix copy-paste error · 54d70a6b
  Cats authored 3 years ago
  
  54d70a6b
- fix copy-paste error (orange docker image) · 5ae1f6de
  Cats authored 3 years ago
  
  5ae1f6de
- fix cupGenerateReport · 799811db
  Cats authored 3 years ago
  
  799811db
Mar 07, 2022
- fix CupGenerateReport · 8ccfb0e0
  Cats authored 3 years ago
  
  8ccfb0e0
- Add parameter_meta for Picard UmiAwareMarkDuplicatesWithMateCigar · b070d3ef
  Ruben Vorderman authored 3 years ago
  
  b070d3ef
- Add parameter_meta for useSoftclippingforSupplementary · a73fd8a6
  Ruben Vorderman authored 3 years ago
  
  a73fd8a6
- Merge pull request #297 from biowdl/addPicardDedup · b2f96cb8
  Ruben Vorderman authored 3 years ago
  
  Add picard dedup
  Unverified
  
  b2f96cb8
- Add missing whitespace. · cf0b105c
  Ruben Vorderman authored 3 years ago
  
  Co-authored-by: Davy Cats <davycats.dc@gmail.com>
  Unverified
  
  cf0b105c
Mar 04, 2022
- Merge branch 'develop' into addPicardDedup · c599cb08
  Ruben Vorderman authored 3 years ago
  
  Unverified
  
  c599cb08
- Slightly less records in RAM · 960aa3cf
  Ruben Vorderman authored 3 years ago
  
  960aa3cf
Mar 03, 2022
- add orange, cupGenerateReport and (hopefully) fix sage plots · d5294222
  Cats authored 3 years ago
  
  d5294222
Mar 02, 2022
- update cuppa to 1.6 · 65273502
  Cats authored 3 years ago
  
  65273502
- Merge remote-tracking branch 'origin/hotfix' into sage · ed2c44f0
  Cats authored 3 years ago
  
  ed2c44f0
- fix health-checker · 513e6456
  Cats authored 3 years ago
  
  513e6456
Mar 01, 2022
- update protect to 2.0 · b76866a2
  Cats authored 3 years ago
  
  b76866a2
Feb 25, 2022
- update virus-interpreter to 1.2 · 24671745
  Cats authored 3 years ago
  
  24671745