Commits · c078ee55dad43ac0a0e229e7c600c1c95b81ace5 · Cervin Guyomar / workflows · GitLab

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Opération de maintenance au data center INRAE de Toulouse du jeudi 20 mars à 15h00 au lundi 24 Mars 2025 à 13h
Les services ForgeMia et Mattermost seront donc inaccessibles pendant cette période (plus de détails)

Aug 28, 2019
- 1000RNASEq Calling : move population.tsv.example to data · c078ee55
  Maria Bernard authored 5 years ago
  
  c078ee55
- 1000RNASEq Calling : add test data · ee2bcc86
  Maria Bernard authored 5 years ago
  
  ee2bcc86
Aug 22, 2019
- 1000RNASeq ASE: remove ">" in VCF header in exclude_non_var.py · 5904d383
  Maria Bernard authored 5 years ago
  
  5904d383
- 1000RNASeq ASE: debug writing VCF header line in exclude_non_var.py · eeebf08b
  Maria Bernard authored 5 years ago
  
  eeebf08b
Aug 21, 2019
- 1000RNASeq ASE: read files in text mode not binary, and improve exclude_non_var.py log · 0f66f769
  mariabernard authored 5 years ago
  
  0f66f769
- 1000RNASeq ASE: change variant filtration results directories and remove var... · c8bd62c1
  mariabernard authored 5 years ago
  
  1000RNASeq ASE: change variant filtration results directories and remove var wildcards (only work on SNP)
  c8bd62c1
- 1000RNASeq ASE: change variant filtration results directories and remove var... · 41a3bd4d
  mariabernard authored 5 years ago
  
  1000RNASeq ASE: change variant filtration results directories and remove var wildcards (only work on SNP)
  41a3bd4d
- 1000RNASeq ASE: add wildcard constraints in bgzip rule · 041ae378
  mariabernard authored 5 years ago
  
  041ae378
- 1000RNASeq ASE: add ability to read gziped file in script · 74ea1f9f
  Maria Bernard authored 5 years ago
  
  74ea1f9f
- 1000RNASeq ASE: correct script directory path in VarForMasking and callRateFilter rules · 4d4b4979
  Maria Bernard authored 5 years ago
  
  4d4b4979
- 1000RNASeq ASE: change default value for call_rate_threshold in config.yaml.example · c7efe3ec
  Maria Bernard authored 5 years ago
  
  c7efe3ec
- 1000RNASeq ASE: add message in VarForMasking and callRateFilter rules · 5407285e
  Maria Bernard authored 5 years ago
  
  5407285e
- 1000RNASeq ASE: correct data/population.tsv.example · 28d0bc5b
  Maria Bernard authored 5 years ago
  
  28d0bc5b
- 1000RNASeq ASE: debug script/call_rate_filter.py and add... · 67ad2a5c
  Maria Bernard authored 5 years ago
  
  1000RNASeq ASE: debug script/call_rate_filter.py and add script/exclude_non_var.py instead of SelectVariant in VariantFiltration.smk
  67ad2a5c
- 1000RNASeq ASE: add doc in config.yaml · 93f79fab
  Maria Bernard authored 5 years ago
  
  93f79fab
Aug 19, 2019
- 1000RNASeq/ASE : take all SJ_out file as input for STAR 2 indexing · 2802e78f
  Maria Bernard authored 5 years ago
  
  2802e78f
- 1000RNASeq/ASE : small doc and resources update · 5983b0bb
  Maria Bernard authored 5 years ago
  
  5983b0bb
- 1000RNASeq ASE : add call rate filtering · 686961f0
  Maria Bernard authored 5 years ago
  
  686961f0
Aug 14, 2019
- 1000RNASeq/ASE : change STAR 2 pass strategies · ff6cc295
  Maria Bernard authored 5 years ago
  
  ff6cc295
Jul 02, 2019
- Update README.md · 496b7186
  Celine Noirot authored 5 years ago
  
  496b7186
- debug jar package calling · 712bd373
  Celine Noirot authored 5 years ago
  
  712bd373
- Update README.md · 73d72b91
  Celine Noirot authored 5 years ago
  
  73d72b91
- doc update · 48d355e9
  Celine Noirot authored 5 years ago
  
  48d355e9
- Update doc · cb61ac35
  Celine Noirot authored 5 years ago
  
  cb61ac35
Jul 01, 2019
- documentation · 10132ef2
  Celine Noirot authored 5 years ago
  
  10132ef2
Jun 26, 2019
- sample file · 72eef507
  Celine Noirot authored 5 years ago
  
  72eef507
- Merge branch 'develop' of forgemia.inra.fr:bios4biol/workflows into develop · 8a83cba3
  Celine Noirot authored 5 years ago
  
  8a83cba3
- Add documentation and singularity image · 89c1b58e
  Celine Noirot authored 5 years ago
  
  89c1b58e
Jun 24, 2019
- 1000GB : rename test_SLURM.sh to SLURM.sh in README.pdf file · 2122a9c9
  mariabernard authored 5 years ago
  
  2122a9c9
- 1000GB : rename test_SLURM.sh to SLURM.sh according to the README.pdf file · b190c43f
  mariabernard authored 5 years ago
  
  b190c43f
- 1000GB : add official 1000GB pipeline specifications · 81969855
  mariabernard authored 5 years ago
  
  81969855
- 1000GB : update test_SLURM.sh · b23cac64
  mariabernard authored 5 years ago
  
  b23cac64
- 1000GB : remove useless test_SGE.sh · b8929838
  mariabernard authored 5 years ago
  
  b8929838
- 1000GB : remove useless resources_SGE.yaml · 0054040a
  mariabernard authored 5 years ago
  
  0054040a
- 1000GB : split sample_merge rule in sample_merge_SE and sample_merge_PE · 31dfede5
  mariabernard authored 5 years ago
  
  31dfede5
- 1000GB : update config.yaml · ecf4f982
  mariabernard authored 5 years ago
  
  ecf4f982
- 1000GB : add reference and test files · c18b5fde
  mariabernard authored 5 years ago
  
  c18b5fde
- 1000GB : remove results files · f52acb6d
  mariabernard authored 5 years ago
  
  f52acb6d
Jun 19, 2019
- 1000RNASEQ chicken ASE: remove log statement in all rules · 2d6f6173
  mariabernard authored 5 years ago
  
  2d6f6173
- 1000RNASEQ chicken ASE: rename rules file · b603bea9
  mariabernard authored 5 years ago
  
  b603bea9