Commits · 556f1e122a534b26d19694d6e13767e1d33d94fc · zavolan_group / pipelines / ZARP · GitLab

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Apr 27, 2020
- Refactor LabKey to Snakemake script · 556f1e12
  Alex Kanitz authored 5 years ago
  556f1e12
- Major refactoring · 6cf28511
  BIOPZ-Katsantoni Maria authored 5 years ago and Alex Kanitz committed 5 years ago
  6cf28511
- Add rules for bigWig creation · 907082c3
  CJHerrmann authored 5 years ago and Alex Kanitz committed 5 years ago
  
  907082c3
Mar 25, 2020
- Update salmon transcriptome index generation · 4e3cac05
  BIOPZ-Bak Maciej authored 5 years ago and Alex Kanitz committed 5 years ago
  
  4e3cac05
Mar 21, 2020
- use minified container images · e9d50454
  Alex Kanitz authored 5 years ago
  
  e9d50454
Mar 20, 2020
- extend ALFA functionality · f5e2f6ac
  Dominik Burri authored 5 years ago and Alex Kanitz committed 5 years ago
  f5e2f6ac
Mar 19, 2020
- MultiQC · fd1e3123
  BIOPZ-Bak Maciej authored 5 years ago and Alex Kanitz committed 5 years ago
  
  fd1e3123
Mar 12, 2020
- updated DAG and rulegraph · c3fffb6c
  BIOPZ-Bak Maciej authored 5 years ago
  
  c3fffb6c
- add TIN score merge and plot steps · a0babc83
  BIOPZ-Bak Maciej authored 5 years ago
  
  a0babc83
- 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 06, 2020
- Merged paired end and single end rules for star_rpm and... · fb784999
  BIOPZ-Gypas Foivos authored 5 years ago
  fb784999
- 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 · 0def7b72
  BIOPZ-Iborra de Toledo Paula authored 5 years ago and BIOPZ-Gypas Foivos committed 5 years ago
  
  0def7b72
Feb 24, 2020
- 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
- Use minified docker images · dc2afcf9
  Alex Kanitz authored 5 years ago
  
  dc2afcf9
- 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
- handle polyA processing in input preparation script · c4e20a21
  BIOPZ-Katsantoni Maria authored 5 years ago and Alex Kanitz committed 5 years ago
  c4e20a21
Feb 17, 2020
- add TIN score calculation · c538fe8b
  BIOPZ-Bak Maciej authored 5 years ago and Alex Kanitz committed 5 years ago
  c538fe8b
Feb 15, 2020
- get Snakemake input from LabKey API · eea0206f
  BIOPZ-Katsantoni Maria authored 5 years ago and Alex Kanitz committed 5 years ago
  eea0206f
Feb 14, 2020
- LabKey-like input to Snakmake input · 979e6cdd
  BIOPZ-Katsantoni Maria authored 5 years ago and Alex Kanitz committed 5 years ago
  979e6cdd
- display rule graph instead of DAG · ff08b9c3
  CJHerrmann authored 5 years ago and Alex Kanitz committed 5 years ago
  ff08b9c3
Feb 09, 2020
- replace test files with small synthetic ones · 48e012a0
  Alex Kanitz authored 5 years ago
  48e012a0
Feb 08, 2020
- integrate completed rules into workflow · ca9a2bb4
  BIOPZ-Iborra de Toledo Paula authored 5 years ago and Alex Kanitz committed 5 years ago
  ca9a2bb4
Feb 04, 2020
- clean up tests · 6a231363
  Alex Kanitz authored 5 years ago
  6a231363