Commits · 392b04d2b5538bab2ec04c4e3ff8c267f6a122cc · zavolan_group / pipelines / ZARP · GitLab

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Mar 20, 2020
- Fix Poly(A)-trimming rule · 392b04d2
  BIOPZ-Katsantoni Maria authored 5 years ago and Alex Kanitz committed 5 years ago
  392b04d2
Mar 19, 2020
- Merge branch 'MultiQC' into 'master' · 27f4fa5b
  Alex Kanitz authored 5 years ago
  27f4fa5b
- MultiQC · fd1e3123
  BIOPZ-Bak Maciej authored 5 years ago and Alex Kanitz committed 5 years ago
  
  fd1e3123
- Merge branch 'documentation_rhea' into 'master' · af976f4c
  Alex Kanitz authored 5 years ago
  af976f4c
- Rename pipeline · b1f10e9e
  BIOPZ-Katsantoni Maria authored 5 years ago and Alex Kanitz committed 5 years ago
  
  b1f10e9e
Mar 18, 2020
- Merge branch 'adapter_ovetrimming' into 'master' · 25191127
  Alex Kanitz authored 5 years ago
  25191127
- Fix cutadapt log file names · 884afee0
  BIOPZ-Katsantoni Maria authored 5 years ago and Alex Kanitz committed 5 years ago
  
  884afee0
Mar 17, 2020
- Merge branch 'update_cluster_json' into 'master' · dcc7b69f
  Alex Kanitz authored 5 years ago
  dcc7b69f
- Update resource requirements for Slurm cluster · aae0ffde
  BIOPZ-Börsch Anastasiya authored 5 years ago and Alex Kanitz committed 5 years ago
  
  aae0ffde
- Merge branch 'adapter_ovetrimming' into 'master' · b0194fc2
  Alex Kanitz authored 5 years ago
  b0194fc2
- Fix cutadapt overtrimming · bab8f25a
  BIOPZ-Katsantoni Maria authored 5 years ago and Alex Kanitz committed 5 years ago
  
  bab8f25a
Mar 13, 2020
- Merge branch 'bug_fixes_typos' into 'master' · 19158512
  BIOPZ-Gypas Foivos authored 5 years ago
  19158512
- fixed snakemake subworkflow typos/bugs · 4baccc98
  BIOPZ-Katsantoni Maria authored 5 years ago
  
  4baccc98
- Merge branch 'doc' into 'master' · 1e146344
  Alex Kanitz authored 5 years ago
  1e146344
- added ALFA documentation · d5702017
  Dominik Burri authored 5 years ago and CJHerrmann committed 5 years ago
  d5702017
- basic pipeline documentation · a6d19904
  CJHerrmann authored 5 years ago
  a6d19904
Mar 12, 2020
- Merge branch 'TIN_score_boxplots' into 'master' · 6775b679
  Alex Kanitz authored 5 years ago
  6775b679
- updated DAG and rulegraph · c3fffb6c
  BIOPZ-Bak Maciej authored 5 years ago
  
  c3fffb6c
- merged with updated master · 65f265fb
  BIOPZ-Bak Maciej authored 5 years ago
  
  65f265fb
- add TIN score merge and plot steps · a0babc83
  BIOPZ-Bak Maciej authored 5 years ago
  
  a0babc83
- Merge branch 'alfa' into 'master' · 14e4b746
  BIOPZ-Gypas Foivos authored 5 years ago
  14e4b746
- include test_alfa in CI · c79bb96e
  Dominik Burri authored 5 years ago
  
  c79bb96e
- added alfa_indexes to config.yaml · a7dddfe6
  Dominik Burri authored 5 years ago
  
  a7dddfe6
- replaced synthetic test by new one. · 46e6e00b
  Dominik Burri authored 5 years ago
  46e6e00b
- included tests for ALFA qc · ad3a8e52
  Dominik Burri authored 5 years ago
  ad3a8e52
- added rule for · 37fb0fd0
  Dominik Burri authored 5 years ago
  37fb0fd0
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
- 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
Feb 24, 2020
- 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 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