Commits · 81c4c7b4739af3cdf77b5c4e73470d9589e1c0c1 · zavolan_group / pipelines / ZARP · GitLab

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Mar 11, 2020
- replaced synthetic test by new one. · 81c4c7b4
  Dominik Burri authored 5 years ago
  
  81c4c7b4
Mar 10, 2020
- remove unnecessary file · 4880a7d0
  Dominik Burri authored 5 years ago
  
  4880a7d0
- corrected md5sum for config.yaml · b8347944
  Dominik Burri authored 5 years ago
  
  b8347944
- included tests for ALFA qc · c41141d0
  Dominik Burri authored 5 years ago
  
  c41141d0
- Merge branch 'alfa_qc' of... · 39428f5e
  Dominik Burri authored 5 years ago
  39428f5e
- added rule for · 1ce1342d
  Dominik Burri authored 5 years ago
  1ce1342d
- Merge branch 'master' into alfa_qc · bd38e8bb
  Dominik Burri authored 5 years ago
  
  bd38e8bb
Mar 07, 2020
- Merge branch 'combine_star_rpm_rule' into 'master' · 9f2e0a67
  Alex Kanitz authored 5 years ago
  9f2e0a67
Mar 06, 2020
- Merged paired end and single end rules for star_rpm and... · fb784999
  BIOPZ-Gypas Foivos authored 5 years ago
  fb784999
- Merge branch 'replace_cufflinks_image_with_gffread_image' into 'master' · 5f98edf3
  BIOPZ-Gypas Foivos authored 5 years ago
  5f98edf3
- Replace cufflinks image with gffread image · c3d15275
  BIOPZ-Gypas Foivos authored 5 years ago
  
  c3d15275
- Merge branch 'master' of... · 569750f7
  Dominik Burri authored 5 years ago
  569750f7
- Generate bedgraph file of normalised coverage. Fixes #45 · 2dfb1c2c
  BIOPZ-Gypas Foivos authored 5 years ago
  
  2dfb1c2c
- Generate bedgraph file of normalised coverage. Fixes #45 · a54ff3e8
  Dominik Burri authored 5 years ago and BIOPZ-Gypas Foivos committed 5 years ago
  
  a54ff3e8
- Extract transcript sequences from genome (fasta file) and gene annotations (gtf file). Fixes #62 · 7784fc9b
  BIOPZ-Gypas Foivos authored 5 years ago
  
  7784fc9b
- Extract transcript sequences from genome (fasta file) and gene annotations (gtf file). Fixes #62 · 0def7b72
  BIOPZ-Iborra de Toledo Paula authored 5 years ago and BIOPZ-Gypas Foivos committed 5 years ago
  
  0def7b72
- Closes #76 and #79 · 88e3914b
  BIOPZ-Gypas Foivos authored 5 years ago
  
  88e3914b
- Separate stdout and stderr logs for the majority of rules. Closes #76 and #79 · ff0a39fa
  BIOPZ-Katsantoni Maria authored 5 years ago and BIOPZ-Gypas Foivos committed 5 years ago
  
  ff0a39fa
- append files to gitignore · a960b934
  Dominik Burri authored 5 years ago
  
  a960b934
Feb 28, 2020
- alfa runs now for all samples #18 · ab7f578c
  Dominik Burri authored 5 years ago
  
  ab7f578c
Feb 24, 2020
- orientation readout corrected · 84fee831
  Dominik Burri authored 5 years ago
  
  84fee831
- Merge branch 'generate_gene_count_tables_from_salmon' into 'master' · f31261b5
  Alex Kanitz authored 5 years ago
  f31261b5
- Add rule that combines counts from Salmon · 357ed828
  BIOPZ-Gypas Foivos authored 5 years ago and Alex Kanitz committed 5 years ago
  357ed828
Feb 23, 2020
- removed unnecessary test files · 7f53fe98
  Dominik Burri authored 5 years ago
  
  7f53fe98
Feb 22, 2020
- add test_alfa to CI · 2008fb68
  Dominik Burri authored 5 years ago
  
  2008fb68
- independent ALFA test · 715e0dc2
  Dominik Burri authored 5 years ago
  
  715e0dc2
Feb 21, 2020
- Merge branch 'use_minified_docker_images' into 'master' · 0c039203
  Alex Kanitz authored 5 years ago
  0c039203
- Use minified docker images · dc2afcf9
  Alex Kanitz authored 5 years ago
  
  dc2afcf9
- Merge branch 'alfa_qc' of... · 22fe82d6
  Dominik Burri authored 5 years ago
  22fe82d6
- fixed annotation.gtf and file renaming · 6e525e09
  Dominik Burri authored 5 years ago
  
  6e525e09
- corrected md5sum calculation · 2e8c3419
  Dominik Burri authored 5 years ago
  
  2e8c3419
- adjusted md5sum · 48471399
  Dominik Burri authored 5 years ago
  
  48471399
- Merge branch 'alfa_qc' of... · 44dacd16
  Dominik Burri authored 5 years ago
  44dacd16
- Merge branch 'generate_gene_count_tables' into 'master' · 13975de8
  Alex Kanitz authored 5 years ago
  13975de8
- Add rule that combines TPM values from Salmon · bb1f9b8f
  BIOPZ-Iborra de Toledo Paula authored 5 years ago and Alex Kanitz committed 5 years ago
  bb1f9b8f
- corrected alfa_index · 3b21e404
  Dominik Burri authored 5 years ago
  
  3b21e404
- add alfa_indexes to config.yaml · 0156ed6f
  Dominik Burri authored 5 years ago
  
  0156ed6f
- small clean-up · b9ed0194
  Dominik Burri authored 5 years ago
  
  b9ed0194
- adjust logging directory · c57e2059
  Dominik Burri authored 5 years ago
  
  c57e2059
- Merge branch 'master' into alfa_qc · 8e8db218
  Dominik Burri authored 5 years ago
  
  8e8db218