Commits · 0dbc77e0975e6789f11a2d9cbad81ecf58b3fa45 · GUDMAP_RBK / RNA-seq

Jul 23, 2020
- Update README.md · 0dbc77e0
  Gervaise Henry authored 4 years ago
  
  0dbc77e0
- AWS Batch works · 9fe16dfb
  Gervaise Henry authored 4 years ago
  
  9fe16dfb
Jul 15, 2020
- Merge branch '10-process.aggregateQC' into 'develop' · 54da2992
  Venkat Malladi authored 4 years ago
```
Resolve "process_qc"

Closes #10

See merge request !33
```
  54da2992
- Move createTestData to test_data · 460d9e53
  Gervaise Henry authored 4 years ago
  
  460d9e53
Jul 14, 2020
- Update docs/dag.png · 59ed6f05
  Gervaise Henry authored 4 years ago
  
  59ed6f05
- Update README.md · f3e1ea29
  Gervaise Henry authored 4 years ago
  
  f3e1ea29
- Return background run to integratiion · 8d3d9dea
  Gervaise Henry authored 4 years ago
  
  8d3d9dea
- Reformat runtime info · 3ab2e9b3
  Gervaise Henry authored 4 years ago
  
  3ab2e9b3
- Remove nextflow -bg from integration test · 299899f4
  Gervaise Henry authored 4 years ago
  
  299899f4
- Add pipeline version var to track · 113f2b7c
  Gervaise Henry authored 4 years ago
  
  113f2b7c
- Update nextflow and singularity versions in CI · 98cf06b5
  Gervaise Henry authored 4 years ago
  
  98cf06b5
- Fix param reference in runtime info · 7f7e0e9d
  Gervaise Henry authored 4 years ago
  
  7f7e0e9d
- Add runtime info · 92edc38f
  Gervaise Henry authored 4 years ago
  
  92edc38f
- Add unsorted deduped bam to test_data creation · 7afd0f5e
  Gervaise Henry authored 4 years ago
  
  7afd0f5e
- Fix new CI unit tests · 3da0fb06
  Gervaise Henry authored 4 years ago
  
  3da0fb06
- Add script to create test data · 5f257a20
  Gervaise Henry authored 4 years ago
  
  5f257a20
- Update CI unit tests to use repRID Q-Y5F6 · 3301ebb4
  Gervaise Henry authored 4 years ago
  
  3301ebb4
- Add unit test run for all mea parseta parsed · 83618d9a
  Gervaise Henry authored 4 years ago
  
  83618d9a
May 20, 2020
- Fix cp error for fastq names with multiple R1/2 · 0c3d1a1e
  Gervaise Henry authored 4 years ago
  
  0c3d1a1e
May 13, 2020
- Stage experiment settings as ExperimentSettings.csv to prevent bash error · ea8a2c38
  Gervaise Henry authored 4 years ago
  
  ea8a2c38
May 11, 2020
- Add source param for getBag #50 · a36c189e
  Gervaise Henry authored 4 years ago
  
  a36c189e
May 06, 2020
- Fix fastq output name fix · 178ac5c0
  Gervaise Henry authored 4 years ago
  
  178ac5c0
- Fix fastq output name · 77800005
  Gervaise Henry authored 4 years ago
  
  77800005
- Generalize destination filename for fastq qxtraction · a3839184
  Gervaise Henry authored 4 years ago
  
  a3839184
- Generalize find fastq after fetch · c02d977a
  Gervaise Henry authored 4 years ago
  
  c02d977a
May 05, 2020
- Change to staging.gudmap.org · ebab7cd7
  Gervaise Henry authored 4 years ago
  
  ebab7cd7
May 04, 2020
- Change fetched fastq's mv to cv... mv was truncating some files · 0c0407f9
  Gervaise Henry authored 4 years ago
  
  0c0407f9
May 02, 2020
- Fix getData · 5e322c79
  Gervaise Henry authored 4 years ago
  
  5e322c79
- Fix multiqc output · ae564dba
  Gervaise Henry authored 4 years ago
  
  ae564dba
- Harmonize outputs, add multiqc output · 28cbd1f8
  Gervaise Henry authored 4 years ago
  
  28cbd1f8
- Harmonize logs · 85392b62
  Gervaise Henry authored 4 years ago
  
  85392b62
- Harmonize process logs (remove excess) · 558e7e78
  Gervaise Henry authored 4 years ago
  
  558e7e78
- Harmonize process comments · 76bc47cd
  Gervaise Henry authored 4 years ago
  
  76bc47cd
- Harmonize in script comments · 81a24580
  Gervaise Henry authored 4 years ago
  
  81a24580
- Fix featureCounts · a37b535c
  Gervaise Henry authored 4 years ago
  
  a37b535c
- Fix stranded inference logic · de145b80
  Gervaise Henry authored 4 years ago
  
  de145b80
- Fix floating point errors · c17649ed
  Gervaise Henry authored 4 years ago
  
  c17649ed
May 01, 2020
- Fix SE alignSampleSummary output name · e52bb115
  Gervaise Henry authored 4 years ago
  
  e52bb115
- Fix SE downsample output optional · a697e78b
  Gervaise Henry authored 4 years ago
  
  a697e78b
- Fix report order · 608bc755
  Gervaise Henry authored 4 years ago
  
  608bc755