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This is an archived project. Repository and other project resources are read-only.

Jan 20, 2023
- Preps QuaC for public availability · bec75027
  Manavalan Gajapathy authored 2 years ago
  
  bec75027
Apr 11, 2022
- User configurable hardware resources · 614a5931
  Manavalan Gajapathy authored 3 years ago
  
  614a5931
Jun 04, 2021
- applies cleanenv to singularity - #28 · e90cd15e
  Manavalan Gajapathy authored 4 years ago
  
  e90cd15e
- supplies uuid from wrapper script - fixes #27 · a80f9225
  Manavalan Gajapathy authored 4 years ago
  
  a80f9225
- makes tmp folder more isolated · 1628c119
  Manavalan Gajapathy authored 4 years ago
  
  1628c119
Jun 02, 2021
- switches qc-checkup to quac_watch · 225d35e8
  Manavalan Gajapathy authored 4 years ago
  
  225d35e8
- adds qualimap's error rate threshold · 97309c7d
  Manavalan Gajapathy authored 4 years ago
  
  97309c7d
- updates variant freq per contig thresholds · 60caec6a
  Manavalan Gajapathy authored 4 years ago
  
  60caec6a
- adds warning · 6ba83602
  Manavalan Gajapathy authored 4 years ago
  
  6ba83602
May 28, 2021
- refactors to enable use of exome specific configs file · 0e5c94f8
  Manavalan Gajapathy authored 4 years ago
  
  0e5c94f8
- sets rerun_failed to 1 - #22 · f1ddd6c9
  Manavalan Gajapathy authored 4 years ago
  
  f1ddd6c9
- removes panoptes monitoring - #23 · d6243e43
  Manavalan Gajapathy authored 4 years ago
  
  d6243e43
May 11, 2021
- switches to using mem-per-cpu · 280375f8
  Manavalan Gajapathy authored 4 years ago
  
  280375f8
May 10, 2021
- makes workflow and qc-checkup fpaths configurable via cli · fa4125fe
  Manavalan Gajapathy authored 4 years ago
  
  fa4125fe
- updates mutliqc config relevant to het ratio · d993ce06
  Manavalan Gajapathy authored 4 years ago
  
  d993ce06
- changes order of sections in mutliqc · 1f047570
  Manavalan Gajapathy authored 4 years ago
  
  1f047570
May 07, 2021
- now quacks checking up on picard-dups · e1e59475
  Manavalan Gajapathy authored 4 years ago
  
  e1e59475
- makes large numbers human readable · c6c88ad1
  Manavalan Gajapathy authored 4 years ago
  
  c6c88ad1
- moves description to qc-checkup config · 38612bca
  Manavalan Gajapathy authored 4 years ago
  
  38612bca
May 06, 2021
- improves usage doc in readme · c4ef7d51
  Manavalan Gajapathy authored 4 years ago
  
  c4ef7d51
- improves docstrings in qc-checkup tool · 4777ab77
  Manavalan Gajapathy authored 4 years ago
  
  4777ab77
- usage command · 56114894
  Manavalan Gajapathy authored 4 years ago
  
  56114894
May 05, 2021
- updates multiqc config · d62cbee8
  Manavalan Gajapathy authored 4 years ago
  
  d62cbee8
- refactors a bit · 6553b3a6
  Manavalan Gajapathy authored 4 years ago
  
  6553b3a6
- quacs variant per contig for qc-checkup · 50b2825b
  Manavalan Gajapathy authored 4 years ago
  
  50b2825b
- updates multiqc config for picard-wgsmetrics · 10437419
  Manavalan Gajapathy authored 4 years ago
  
  10437419
- adds picard-wgsmetrics to cgds qc checkup · 664414b9
  Manavalan Gajapathy authored 4 years ago
  
  664414b9
Apr 20, 2021
- adds cli option to choose slurm partition · ee28a73e
  Manavalan Gajapathy authored 4 years ago
  
  ee28a73e
Apr 19, 2021
- bumps up parent quac's partition · 7598d8f5
  Manavalan Gajapathy authored 4 years ago
  
  7598d8f5
Apr 17, 2021
- removes commented out code · c9ad2ac9
  Manavalan Gajapathy authored 4 years ago
  
  c9ad2ac9
Apr 16, 2021
- updates multiqc config · ecd1ce43
  Manavalan Gajapathy authored 4 years ago
  
  ecd1ce43
- refactors picard checkup to single outfile setup · 809742c7
  Manavalan Gajapathy authored 4 years ago
  
  809742c7
- updates multiqc config to match qc-checkup config · 2dbbe10b
  Manavalan Gajapathy authored 4 years ago
  
  2dbbe10b
- adds picard-QualityYieldMetrics for threshold testing · d6d8a3db
  Manavalan Gajapathy authored 4 years ago
  
  d6d8a3db
- adds picard ASM to qc-checkup · 204fdc60
  Manavalan Gajapathy authored 4 years ago
  
  204fdc60
Apr 09, 2021
- adds jobname rule to cluster config · a94ba152
  Manavalan Gajapathy authored 4 years ago
  
  a94ba152
- adds panoptes monitoring · 2fa49674
  Manavalan Gajapathy authored 4 years ago
  
  2fa49674
Apr 08, 2021
- bugfix: changes mosdepth's javascript path · 1ddb554e
  Manavalan Gajapathy authored 4 years ago
  
  1ddb554e
- verifybamid now uses % in qc-checkup · 2e6cd879
  Manavalan Gajapathy authored 4 years ago
  
  2e6cd879
Apr 06, 2021
- raises error if keyword left undefined · 4baf9311
  Manavalan Gajapathy authored 4 years ago
  
  4baf9311