Commits · 35cb5f872402ec9e9e68f2c626abce6f36117a41 · zavolan_group / pipelines / ZARP · GitLab

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Jul 16, 2021
- Merge branch 'buxfix/fix-time-in-snakemake-report' into 'dev' · 35cb5f87
  BIOPZ-Gypas Foivos authored 3 years ago
  35cb5f87
- Bump snakemake version that fixes the reported time in snakemake report. · 37910a09
  BIOPZ-Gypas Foivos authored 3 years ago
  
  37910a09
- Bump version of tin-score-calculation from 0.4 to 0.5. Fixes #179 · bb60c716
  BIOPZ-Gypas Foivos authored 3 years ago
  
  bb60c716
- Bump version of tin-score-calculation from 0.4 to 0.5 · 076a2fd0
  BIOPZ-Gypas Foivos authored 3 years ago
  
  076a2fd0
Jul 15, 2021
- Merge branch 'input_validation' into 'dev' · da752368
  Dominik Burri authored 3 years ago
  da752368
- Validation of configuration file with a json schema... · 1d3ace6e
  Dominik Burri authored 3 years ago
  1d3ace6e
Jul 14, 2021
- Merge branch 'cutadapt_min_len' into 'dev' · f63c7cc2
  Alex Kanitz authored 3 years ago
  f63c7cc2
- Cutadapt set -m=1 to avoid empty reads · e46e237a
  CJHerrmann authored 3 years ago and Alex Kanitz committed 3 years ago
  
  e46e237a
Jul 13, 2021
- Merge branch 'bug/snakemake-report-with-slurm-run' into 'dev' · 8098698b
  BIOPZ-Katsantoni Maria authored 3 years ago
  8098698b
- Fix paths to Snakefile for slurm test scripst · 918714cd
  BIOPZ-Gypas Foivos authored 3 years ago
  
  918714cd
Jun 11, 2021
- Merge branch 'feature/conda-support' into 'dev' · 53b95906
  BIOPZ-Gypas Foivos authored 3 years ago
  53b95906
- Add conda support in ZARP · 10885dca
  BIOPZ-Gypas Foivos authored 3 years ago
  
  10885dca
May 28, 2021
- Merge branch 'feature/biocontainers_zavolan-multiqc-plugins' into 'dev' · 2ab716c0
  BIOPZ-Gypas Foivos authored 3 years ago
  2ab716c0
- Add biocontainers image for multiqc-plugins · 8ea4e8ff
  BIOPZ-Gypas Foivos authored 3 years ago
  
  8ea4e8ff
- Merge branch 'feature/biocontainers_tin-score-calculation' into 'dev' · b3815f7f
  BIOPZ-Gypas Foivos authored 3 years ago
  b3815f7f
- Add biocontainers image for tin-score-calculation · d4a37587
  BIOPZ-Gypas Foivos authored 3 years ago
  
  d4a37587
- Merge branch 'feature/biocontainers_merge_kallisto' into 'dev' · 1f9ca7c2
  BIOPZ-Gypas Foivos authored 3 years ago
  1f9ca7c2
- Add biocontainers image for merge_kallisto.R · 6ded6ada
  BIOPZ-Gypas Foivos authored 3 years ago
  
  6ded6ada
- Add zgtf biocontainers image · 3bc92be6
  BIOPZ-Gypas Foivos authored 3 years ago
  
  3bc92be6
- Merge branch 'feature/biocontainers_zpca' into 'dev' · 472143b1
  BIOPZ-Gypas Foivos authored 3 years ago
  472143b1
- Replace zpca container from zavolab to biocontainers. · a81803b9
  BIOPZ-Gypas Foivos authored 3 years ago
  
  a81803b9
May 12, 2021
- Add zgtf biocontainers image · f8028a93
  BIOPZ-Gypas Foivos authored 3 years ago
  
  f8028a93
May 11, 2021
- MultiQC report: custom plugin for zpca. Fixes #146 · 6f89145d
  BIOPZ-Gypas Foivos authored 3 years ago
  
  6f89145d
- MultiQC report: custom plugin for zpca. Fixes #146 · 36c02328
  BIOPZ-Bak Maciej authored 3 years ago and BIOPZ-Gypas Foivos committed 3 years ago
  
  36c02328
May 07, 2021
- Use biocontainers images for star, gffread, salmon, kallisto, cutadapt,... · e265ed75
  BIOPZ-Gypas Foivos authored 4 years ago
  e265ed75
- Use biocontainers images for star, gffread, salmon, kallisto, cutadapt,... · be8eb02d
  BIOPZ-Gypas Foivos authored 4 years ago
  be8eb02d
Apr 15, 2021
- Merge branch 'rule_config_params' into 'dev' · 10e8891c
  Alex Kanitz authored 4 years ago
  10e8891c
- feat: enable user to configure CLI params per rule · d35d5500
  CJHerrmann authored 4 years ago and Alex Kanitz committed 4 years ago
  
  d35d5500
Mar 25, 2021
- Merge branch 'remove_defaults' into 'dev' · 378f6aed
  BIOPZ-Gypas Foivos authored 4 years ago
  378f6aed
- Remove extra parameters, that had or should have the default values · 5396adf5
  BIOPZ-Katsantoni Maria authored 4 years ago and BIOPZ-Gypas Foivos committed 4 years ago
  5396adf5
Feb 26, 2021
- - use of... · 6b6b2830
  BIOPZ-Gypas Foivos authored 4 years ago
  6b6b2830
- Remove unnecessary files in the results directory · 6804ea67
  Dominik Burri authored 4 years ago and BIOPZ-Gypas Foivos committed 4 years ago
  
  6804ea67
Feb 11, 2021
- Merge branch 'multiqc-plugins' into 'dev' · 736d1a3d
  BIOPZ-Gypas Foivos authored 4 years ago
  736d1a3d
- MultiQC plugins for TIN scores and ALFA Fixes #138 · fab75506
  BIOPZ-Bak Maciej authored 4 years ago and BIOPZ-Gypas Foivos committed 4 years ago
  
  fab75506
Oct 16, 2020
- Merge branch 'pca' into 'dev' · f67aafb2
  BIOPZ-Gypas Foivos authored 4 years ago
  f67aafb2
- - Delete unused files scripts/fg_extract_transcripts.py,... · c535a892
  BIOPZ-Gypas Foivos authored 4 years ago
  c535a892
Jun 25, 2020
- Merge branch 'patch-1' into 'dev' · 2bdcf390
  Alex Kanitz authored 4 years ago
  2bdcf390
Jun 23, 2020
- Merge branch 'merge_kallisto' into 'dev' · 2f28725d
  BIOPZ-Gypas Foivos authored 4 years ago
  2f28725d
- Merge kallisto rules: kallisto_merge_genes and kallisto_merge_transcript · 1f007e19
  BIOPZ-Iborra de Toledo Paula authored 4 years ago and BIOPZ-Gypas Foivos committed 4 years ago
  1f007e19
Jun 18, 2020
- Merge branch 'incr_memory_cluster_json' into 'dev' · 1c00ccb0
  Alex Kanitz authored 4 years ago
  1c00ccb0