Commits · 3301ebb41120b7133944f7fdd6e9191a726ae237 · GUDMAP_RBK / RNA-seq

May 13, 2020
- Stage experiment settings as ExperimentSettings.csv to prevent bash error · ea8a2c38
  Gervaise Henry authored 5 years ago
  
  ea8a2c38
May 11, 2020
- Add source param for getBag #50 · a36c189e
  Gervaise Henry authored 5 years ago
  
  a36c189e
May 05, 2020
- Change to staging.gudmap.org · ebab7cd7
  Gervaise Henry authored 5 years ago
  
  ebab7cd7
May 02, 2020
- Fix getData · 5e322c79
  Gervaise Henry authored 5 years ago
  
  5e322c79
- Fix multiqc output · ae564dba
  Gervaise Henry authored 5 years ago
  
  ae564dba
- Harmonize outputs, add multiqc output · 28cbd1f8
  Gervaise Henry authored 5 years ago
  
  28cbd1f8
- Harmonize logs · 85392b62
  Gervaise Henry authored 5 years ago
  
  85392b62
- Harmonize process logs (remove excess) · 558e7e78
  Gervaise Henry authored 5 years ago
  
  558e7e78
- Harmonize process comments · 76bc47cd
  Gervaise Henry authored 5 years ago
  
  76bc47cd
- Harmonize in script comments · 81a24580
  Gervaise Henry authored 5 years ago
  
  81a24580
- Fix featureCounts · a37b535c
  Gervaise Henry authored 5 years ago
  
  a37b535c
- Fix stranded inference logic · de145b80
  Gervaise Henry authored 5 years ago
  
  de145b80
- Fix floating point errors · c17649ed
  Gervaise Henry authored 5 years ago
  
  c17649ed
May 01, 2020
- Fix SE alignSampleSummary output name · e52bb115
  Gervaise Henry authored 5 years ago
  
  e52bb115
- Fix SE downsample output optional · a697e78b
  Gervaise Henry authored 5 years ago
  
  a697e78b
- Add experiment and study rid's to multiqc report · 8c2c17a2
  Gervaise Henry authored 5 years ago
  
  8c2c17a2
- Add metadata and repRID to multiqc report · 3bc88431
  Gervaise Henry authored 5 years ago
  
  3bc88431
Apr 30, 2020
- Add all reports(except metadata) · 4e0779da
  Gervaise Henry authored 5 years ago
  
  4e0779da
Apr 27, 2020
- Fix next line in trackStart · 0fee5c77
  Gervaise Henry authored 5 years ago
  
  0fee5c77
- Fix repRID in trackStart · f57fba59
  Gervaise Henry authored 5 years ago
  
  f57fba59
- Add quotes to repRID in trackStart · 33011d74
  Gervaise Henry authored 5 years ago
  
  33011d74
- Fix trackStart · 8ab3986d
  Gervaise Henry authored 5 years ago
  
  8ab3986d
- Add extra params for tracking · 07f3c00e
  Gervaise Henry authored 5 years ago
  
  07f3c00e
Apr 25, 2020
- Change pipeline tracking to curl · ef4ac234
  Gervaise Henry authored 5 years ago
  
  ef4ac234
- Add trackStart · 53505b86
  Gervaise Henry authored 5 years ago
  
  53505b86
- Add more columns · c255d989
  Gervaise Henry authored 5 years ago
  
  c255d989
Apr 24, 2020
- Resove merge comments from @venkat.malladi · 69d74285
  Gervaise Henry authored 5 years ago
  
  69d74285
Apr 22, 2020
- Add unit CI test for (new) inferMetadata · c17b8a62
  Gervaise Henry authored 5 years ago
  
  c17b8a62
- Add inference and apply new naming standards · 53c34278
  Gervaise Henry authored 5 years ago
  
  53c34278
Apr 07, 2020
- Reorder processes · 1d48e1ef
  Gervaise Henry authored 5 years ago
  
  1d48e1ef
- Add align sampled data · 2b89cc74
  Gervaise Henry authored 5 years ago
  
  2b89cc74
Apr 02, 2020
- Fix infer.csv output · cc6ffe96
  Gervaise Henry authored 5 years ago
  
  cc6ffe96
- Update rna-seq.nf · b292ccee
  Gervaise Henry authored 5 years ago
  
  b292ccee
- Update rna-seq.nf · 862e319e
  Gervaise Henry authored 5 years ago
  
  862e319e
Apr 01, 2020
- Changed infer.tsv back to infer.csv with appropriate formatting changes. · 4346896f
  Jonathan Gesell authored 5 years ago
  
  4346896f
Mar 26, 2020
- Parallelized inferMetaData's TIN calculation. · 82bac4e7
  Jonathan Gesell authored 5 years ago
  
  82bac4e7
Mar 24, 2020
- Add getRefInfer · 5ee1ac2c
  Gervaise Henry authored 5 years ago
  
  5ee1ac2c
- Add dowsampling trimmed fastqs · 3b4d0255
  Gervaise Henry authored 5 years ago
  
  3b4d0255
Mar 23, 2020
- Fix infer logic · 28850994
  Gervaise Henry authored 5 years ago
  
  28850994
Mar 20, 2020
- Code review changes/corrections · 28f1a97f
  Jonathan Gesell authored 5 years ago
  
  28f1a97f