Commits · c6341db2a169d0c70d89dff898be83f7f0fb4ffd · zavolan_group / pipelines / ZARP · GitLab

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Feb 14, 2020
- verify test workflow output against ground truth · c6341db2
  Alex Kanitz authored 5 years ago
  c6341db2
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 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
- 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
Jan 10, 2020
- Merge branch 'validate_snakefile' into 'master' · 9d7eca2a
  Alex Kanitz authored 5 years ago
  9d7eca2a
- added fastq test files · f492977d
  BIOPZ-Bak Maciej authored 5 years ago and Alex Kanitz committed 5 years ago
  
  f492977d
Jan 07, 2020
- Merge branch 'ci_cd' into 'master' · f13b033c
  Alex Kanitz authored 5 years ago
  f13b033c
- add continuous integration support · 0268b4e5
  Alex Kanitz authored 5 years ago
  
  0268b4e5
Dec 20, 2019
- Merge branch 'subpipelines' into 'master' · 9017c055
  BIOPZ-Gypas Foivos authored 5 years ago
  9017c055
- Rename snakemake/paired_end.snakemake to snakemake/paired_end.snakefile. Fix... · 44d3f3e3
  BIOPZ-Gypas Foivos authored 5 years ago
  44d3f3e3
- Clean up unused code in snakemake/Snakefile. Add 2 threads in htseq_qa (paired... · 5094be70
  BIOPZ-Gypas Foivos authored 5 years ago
  5094be70
- Remove prepare_annotation directory. Rename process_data to snakemake. · cb46aa34
  BIOPZ-Gypas Foivos authored 5 years ago
  
  cb46aa34
- Merge branch 'subpipelines' of... · c4c2d86e
  BIOPZ-Iborra de Toledo Paula authored 5 years ago
  c4c2d86e
- Single end sequencing analysis subpipeline · 0b6e541f
  BIOPZ-Iborra de Toledo Paula authored 5 years ago
  
  0b6e541f
- Paired end sequencing analysis subpipeline · dda2fb8d
  BIOPZ-Katsantoni Maria authored 5 years ago
  
  dda2fb8d
- Merge branch 'features/heatmap_and_clustermap_script' into 'master' · 20696ee4
  BIOPZ-Gypas Foivos authored 5 years ago
  20696ee4
- Add script that generates heatmap and clustermap · 518f4af4
  BIOPZ-Gypas Foivos authored 5 years ago
  
  518f4af4
- Merge branch 'features/PCA_script' into 'master' · 59cc2cca
  BIOPZ-Gypas Foivos authored 5 years ago
  59cc2cca
- Add script that performs PCA analysis · 2e6f0be6
  BIOPZ-Gypas Foivos authored 5 years ago
  
  2e6f0be6
- Add Apache v2.0 license · 5caaaf3e
  Alex Kanitz authored 5 years ago
  
  5caaaf3e
Dec 13, 2019
- Started working on subpipelines · cd2052dd
  CJHerrmann authored 5 years ago
  
  cd2052dd
Feb 19, 2019
- Addition of basic steps for process data · 52c1de75
  BIOPZ-Gypas Foivos authored 6 years ago
  
  52c1de75
- Small changes in the prepare annotation pipeline. · 609db153
  BIOPZ-Gypas Foivos authored 6 years ago
  
  609db153