Commits · a06578adf6190d8a4e4440a83f80ee3c1659a849 · GUDMAP_RBK / RNA-seq

Mar 27, 2020
- Update test_dedupReads.py to include split, testing chr1, chr2, chr8 · a06578ad
  Jonathan Gesell authored 4 years ago
  
  a06578ad
- Update .gitlab-ci.yml to include splitting the BAM and BAI files. · 2ee9ebdc
  Jonathan Gesell authored 4 years ago
  
  2ee9ebdc
Mar 26, 2020
- Parallelized inferMetaData's TIN calculation. · 82bac4e7
  Jonathan Gesell authored 4 years ago
  
  82bac4e7
Mar 24, 2020
- Merge branch '44-stranded.logic' into '45-parallelizeTin' · e108c736
  Jonathan Gesell authored 4 years ago
```
Fix infer logic

See merge request !25
```
  e108c736
Mar 23, 2020
- Fix infer logic · 28850994
  Gervaise Henry authored 4 years ago
  
  28850994
Mar 20, 2020
- initial commit, untested · af133ded
  Jonathan Gesell authored 4 years ago
  
  af133ded
Mar 15, 2020
- Merge branch '35-RSeQC' into 'develop' · ad35f8df
  Venkat Malladi authored 5 years ago
```
Resolve "process_RSeQC"

Closes #35

See merge request !23
```
  ad35f8df
- Update dag.png · 0c28e8d2
  Gervaise Henry authored 5 years ago
  
  0c28e8d2
Mar 14, 2020
- Fix reference input for inferMeta · f774a99c
  Gervaise Henry authored 5 years ago
  
  f774a99c
- Fix dedupBam input of inferMeta · 2beb83ad
  Gervaise Henry authored 5 years ago
  
  2beb83ad
- Use dedupBam for inferMeta · ca8ec578
  Gervaise Henry authored 5 years ago
  
  ca8ec578
- Removed unused script · e5fdb858
  Gervaise Henry authored 5 years ago
  
  e5fdb858
- Update dag.png · cedf49d7
  Gervaise Henry authored 5 years ago
  
  cedf49d7
- Fix mkdir bdbag in ci · 68224f63
  Gervaise Henry authored 5 years ago
  
  68224f63
- Add back and update name of reference for inferMeta · e187976f
  Gervaise Henry authored 5 years ago
  
  e187976f
- Merge branch 'develop' into '35-RSeQC' · 575c554d
  Gervaise Henry authored 5 years ago
```
# Conflicts:
#   .gitlab-ci.yml
#   workflow/conf/biohpc.config
```
  575c554d
Mar 13, 2020
- Fix trim qc output · 23cfdc21
  Gervaise Henry authored 5 years ago
  
  23cfdc21
- Fix dedup qc output · 31054b21
  Gervaise Henry authored 5 years ago
  
  31054b21
- Add process log files · 1f7e1dc9
  Gervaise Henry authored 5 years ago
  
  1f7e1dc9
- Include optional inner distance histogram data output · 765e5226
  Gervaise Henry authored 5 years ago
  
  765e5226
- Update design docs · 6da4a7d1
  Gervaise Henry authored 5 years ago
  
  6da4a7d1
- Output align bam/bai to tuple, use rawBam for inference, fix failed read · 57220b3a
  Gervaise Henry authored 5 years ago
  
  57220b3a
Mar 12, 2020
- Fix sillier error in align unit ci pytest · 420cede9
  Gervaise Henry authored 5 years ago
  
  420cede9
- Fix silly error in align unit ci pytest · ac502364
  Gervaise Henry authored 5 years ago
  
  ac502364
- Fix deduped unit ci sorted bam/bai prefix · 1e50ff6e
  Gervaise Henry authored 5 years ago
  
  1e50ff6e
- Add bai test to dedup unit ci pytest · f50feedd
  Gervaise Henry authored 5 years ago
  
  f50feedd
- Fix bai in align unit ci pytest · c076037b
  Gervaise Henry authored 5 years ago
  
  c076037b
- Fix bam indexing output name to .bam.bai · 70e6fa19
  Gervaise Henry authored 5 years ago
  
  70e6fa19
- Fix tin input in unit CO · 3e7d2beb
  Gervaise Henry authored 5 years ago
  
  3e7d2beb
- Add unit test for inferMetadata · a2a809c7
  Gervaise Henry authored 5 years ago
  
  a2a809c7
- Remove R aggregation · ac21c821
  Gervaise Henry authored 5 years ago
  
  ac21c821
- Clean inference, add tin · 12996d71
  Gervaise Henry authored 5 years ago
  
  12996d71
Feb 28, 2020
- Mod some infer meta · 4a68865f
  Gervaise Henry authored 5 years ago
  
  4a68865f
Feb 18, 2020
- Update unit for getRef to use local refs · 75486483
  Gervaise Henry authored 5 years ago
  
  75486483
- Merge branch '39-dev.docs' into 'develop' · 5b436e02
  Venkat Malladi authored 5 years ago
```
Resolve "Update design docs"

Closes #39

See merge request !21
```
  5b436e02
Feb 17, 2020
- Update dag.png · 4862704a
  Gervaise Henry authored 5 years ago
  
  4862704a
- Update README.md · c6fc3b0b
  Gervaise Henry authored 5 years ago
  
  c6fc3b0b
- Update gitlab bug and merge request templates · 30fc41fb
  Gervaise Henry authored 5 years ago
  
  30fc41fb
- Make integration_pe create dag and make artifact · 0d895b2c
  Gervaise Henry authored 5 years ago
  
  0d895b2c
- Update readme with dag · d27e0c58
  Gervaise Henry authored 5 years ago
  
  d27e0c58