Commits · 4f7447ac1248678f4e05b95b5cee733598054af1 · zavolan_group / pipelines / ZARP · GitLab

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Feb 21, 2020
- alfa for all samples · 4f7447ac
  Dominik Burri authored 5 years ago
  
  4f7447ac
Feb 20, 2020
- renaming out.bg based on orientation · f54ed2c0
  Dominik Burri authored 5 years ago
  
  f54ed2c0
Feb 14, 2020
- alfa biotypes integrated · cbd41cd0
  Dominik Burri authored 5 years ago
  
  cbd41cd0
- change alfa_index log file · 8c9ef971
  Dominik Burri authored 5 years ago
  
  8c9ef971
- star RPM integrated · 7e272d27
  Dominik Burri authored 5 years ago
  
  7e272d27
- include alfa_indexes · 8a7232d3
  Dominik Burri authored 5 years ago
  
  8a7232d3
- alfa_index pipeline integration · 8d44496a
  Dominik Burri authored 5 years ago
  
  8d44496a
- Merge remote-tracking branch 'origin/master' into alfa_qc · 94ec5c8a
  Dominik Burri authored 5 years ago
  94ec5c8a
Feb 09, 2020
- Merge branch 'test_files' into 'master' · 7f243c20
  Alex Kanitz authored 5 years ago
  7f243c20
- replace test files with small synthetic ones · 48e012a0
  Alex Kanitz authored 5 years ago
  48e012a0
Feb 08, 2020
- Merge branch 'subpipelines' into 'master' · d60fefdc
  Alex Kanitz authored 5 years ago
  d60fefdc
- integrate completed rules into workflow · ca9a2bb4
  BIOPZ-Iborra de Toledo Paula authored 5 years ago and Alex Kanitz committed 5 years ago
  ca9a2bb4
Feb 07, 2020
- Merge branch 'labkey_input_merge' into 'master' · d5c96d88
  Alex Kanitz authored 5 years ago
  d5c96d88
- Create two dictionary files for converting LabKey table to Snakemake inputs · 8b8e2774
  BIOPZ-Börsch Anastasiya authored 5 years ago and Alex Kanitz committed 5 years ago
  
  8b8e2774
- Merge branch 'various_fixes' into 'master' · e72d8b31
  Alex Kanitz authored 5 years ago
  e72d8b31
- fix various small issues · 17818f4a
  Alex Kanitz authored 5 years ago
  17818f4a
Feb 04, 2020
- Merge branch 'documentation' into 'master' · a30dc213
  Alex Kanitz authored 5 years ago
  a30dc213
- add documentation · 1ef8b6af
  Alex Kanitz authored 5 years ago
  1ef8b6af
- Merge branch 'clean_up_tests' into 'master' · 0b15325e
  Alex Kanitz authored 5 years ago
  0b15325e
- clean up tests · 6a231363
  Alex Kanitz authored 5 years ago
  6a231363
Feb 03, 2020
- Merge branch 'create_full_input_table' into 'master' · 3d9a272c
  Alex Kanitz authored 5 years ago
  3d9a272c
- generate Snakemake inputs from LabKey data table · cd541afe
  BIOPZ-Katsantoni Maria authored 5 years ago and Alex Kanitz committed 5 years ago
  cd541afe
Jan 31, 2020
- Merge remote-tracking branch 'origin/master' into alfa_qc · 1e1c665d
  Dominik Burri authored 5 years ago
  1e1c665d
Jan 24, 2020
- Merge branch 'kallisto_directionality_bug_fix' into 'master' · e2a49244
  BIOPZ-Gypas Foivos authored 5 years ago
  e2a49244
- Fix params.direcionality for kallisto rule · ecc71f7d
  BIOPZ-Gypas Foivos authored 5 years ago
  
  ecc71f7d
- Merge branch 'features/fake_input_samples_files' into 'master' · 5f61a1d1
  Alex Kanitz authored 5 years ago
  5f61a1d1
- update test input files · 4e99b664
  BIOPZ-Gypas Foivos authored 5 years ago and Alex Kanitz committed 5 years ago
  4e99b664
- corrected stranded ALFA for rev. seq data · 21952900
  Dominik Burri authored 5 years ago
  
  21952900
- test other sample and gtf · 4efc5d27
  Dominik Burri authored 5 years ago
  
  4efc5d27
- correct alfa stranded · 90455266
  Dominik Burri authored 5 years ago
  
  90455266
- Merge branch 'labkey_api' into 'master' · c52ee49d
  Alex Kanitz authored 5 years ago
  c52ee49d
- - add Python script `scripts/labkey_api.py` to retrieve LabKey tables · 9dc59b8e
  BIOPZ-Börsch Anastasiya authored 5 years ago and Alex Kanitz committed 5 years ago
  9dc59b8e
- remove todo statements · 1d39fe8f
  Dominik Burri authored 5 years ago
  
  1d39fe8f
- ALFA (un)stranded works for chr21.bam #18 · 4af9f0b1
  Dominik Burri authored 5 years ago
  
  4af9f0b1
- correct python tabs · d59c4f5d
  Dominik Burri authored 5 years ago
  
  d59c4f5d
- add cluster rule for ALFA index · 739bd4cf
  Dominik Burri authored 5 years ago
  
  739bd4cf
- test STAR and ALFA with chr21.bam · b11ab87b
  Dominik Burri authored 5 years ago
  
  b11ab87b
- alfa index with singularity · cbdc37e3
  Dominik Burri authored 5 years ago
  
  cbdc37e3
- added rules for ALFA · 33e073cc
  Dominik Burri authored 5 years ago
  
  33e073cc
Jan 10, 2020
- Merge branch 'validate_snakefile' into 'master' · 9d7eca2a
  Alex Kanitz authored 5 years ago
  9d7eca2a