Commits · 474455b0f8eefa960e2fabab101b1962c0489c77 · BICF / Astrocyte / cellranger_mkfastq

Apr 12, 2019
- Merge branch '9-split.multiqc' into 'develop' · 474455b0
  Gervaise Henry authored 5 years ago
```
Resolve "Split multiqc fastqc by r1/r2/i1"

Closes #9

See merge request !11
```
  474455b0
- Split fastqc reports by I1,R1,R2 · 1811a23f
  Gervaise Henry authored 5 years ago
  
  1811a23f
- Merge branch '11_fastqcoptimize' into 'develop' · 21c3f273
  Gervaise Henry authored 5 years ago
```
11 fastqcoptimize

See merge request !10
```
  21c3f273
- Fix · 7255080d
  Gervaise Henry authored 5 years ago
  
  7255080d
Apr 11, 2019
- Removed redundant command. · 7a60cbd7
  Jonathan Gesell authored 5 years ago
  
  7a60cbd7
- Updated fastqc for better multithreading, updated module lists. · 2f5a2b47
  Jonathan Gesell authored 5 years ago
  
  2f5a2b47
Apr 10, 2019
- Merge branch '7-documentation' into 'develop' · f448eb64
  Gervaise Henry authored 5 years ago
```
Resolve "Update Documentation"

Closes #7

See merge request !7
```
  f448eb64
- Add qc's to docs · a4c203b0
  Gervaise Henry authored 5 years ago
  
  a4c203b0
- Add back test_data dir · e90a2d17
  Gervaise Henry authored 5 years ago
  
  e90a2d17
- Update docs · 862a479e
  Gervaise Henry authored 5 years ago
  
  862a479e
- Merge branch '6-multiqc' into 'develop' · a896a72c
  Gervaise Henry authored 5 years ago
```
Resolve "Add MultiQC"

See merge request !6
```
  a896a72c
Apr 09, 2019
- Add run name param · 181c0f05
  Gervaise Henry authored 5 years ago
  
  181c0f05
- Add process tags · 852500e6
  Gervaise Henry authored 5 years ago
  
  852500e6
Apr 08, 2019
- Rejigger process queues · 919ebd3d
  Gervaise Henry authored 5 years ago
  
  919ebd3d
- Remove premature reference script and set fastq process to use super queue · 0ad4bb2a
  Gervaise Henry authored 5 years ago
  
  0ad4bb2a
- Change report order · 00b66d4c
  Gervaise Henry authored 5 years ago
  
  00b66d4c
- Add custom multiqc report yaml with software versions · 42e5fcf0
  Gervaise Henry authored 5 years ago
  
  42e5fcf0
Apr 07, 2019
- Improve input file import of fastqc process · 9fe4abf2
  Gervaise Henry authored 5 years ago
  
  9fe4abf2
- Add fastqc (needs input file optimization) · 7b474afc
  Gervaise Henry authored 5 years ago
  
  7b474afc
Apr 05, 2019
- Add basic multiqc process · 6e722372
  Gervaise Henry authored 5 years ago
  
  6e722372
- Update astrocyte_pkg.yml to accept .tar or .tar.gz · c6bfd08e
  Gervaise Henry authored 5 years ago
  
  c6bfd08e
Apr 04, 2019
- Updated and corrected for Astrocyte · aef86ad7
  Jonathan Gesell authored 5 years ago
  
  aef86ad7
Mar 28, 2019
- Merge branch '2-optimize_makefastq' into 'develop' · 6e9d50a2
  Gervaise Henry authored 5 years ago
```
# Conflicts:
#   workflow/main.nf
```
  6e9d50a2
- Added better multithredding utilization to Cellranger step. · eb4dd6b6
  Jonathan Gesell authored 5 years ago
  
  eb4dd6b6
Mar 24, 2019
- Merge branch '1-update' into 'develop' · 4e731fe0
  Gervaise Henry authored 5 years ago
```
Resolve "Migrate cellranger_count basics"

See merge request !2
```
  4e731fe0
- Update README.md · 5dfa2268
  Gervaise Henry authored 5 years ago
  
  5dfa2268
- Add astrocyte module load to CI · 5076c9d0
  Gervaise Henry authored 5 years ago
  
  5076c9d0
- Updates, CI, config, main, check_design · 8f3b2fe6
  Gervaise Henry authored 5 years ago
  
  8f3b2fe6
- Add nextflow.config to repo rood dir · f8e6940f
  Gervaise Henry authored 5 years ago
  
  f8e6940f
- Copy setting and documentation from cellranger_count · b64eab3e
  Gervaise Henry authored 5 years ago
  
  b64eab3e
Mar 21, 2019
- Merge branch '1-parallelization' into 'master' · f335209d
  Gervaise Henry authored 5 years ago
```
Added parallel decompression of BCL file using pigz

See merge request !1
```
  f335209d
- Added parallel decompression of BCL file using pigz · 29a14c64
  Jonathan Gesell authored 5 years ago
  
  29a14c64
Jun 18, 2018
- Remove from ci. · e728fa7d
  Venkat Malladi authored 6 years ago
  
  e728fa7d
- Fix module loading issue. · cca1abd1
  Venkat Malladi authored 6 years ago
  
  cca1abd1
- Remove modules. · 9e15745f
  Venkat Malladi authored 6 years ago
  
  9e15745f
- Update .gitlab-ci.yml to load all modules · daede552
  Gervaise Henry authored 6 years ago
  
  daede552
- Fix modules. · 7019bd49
  Venkat Malladi authored 6 years ago
  
  7019bd49
Jun 15, 2018
- Try to fix module load errors · 29e58514
  Gervaise Henry authored 6 years ago
  
  29e58514
- Update main.nf (python-python3) · f3417629
  Gervaise Henry authored 6 years ago
  
  f3417629
- Add in ci runner to test if code runs. · 77fcf47e
  Venkat Malladi authored 6 years ago
  
  77fcf47e