Commits · 86d0f7b9ba9f9e4b01b6317baa4e05dc3dabb70c · Strand Lab / sc-TissueMapper_Pr

Oct 04, 2018
- Allow DS.D17 bash script to be sbatch'ed to 128BG node also · 86d0f7b9
  Gervaise Henry authored 6 years ago
  
  86d0f7b9
- Merge branch 'develop' into ds.D17 · 8e5d7033
  Gervaise Henry authored 6 years ago
  
  8e5d7033
- Make cell cycle violin and ridge plots for specific genes a try · 098fe606
  Gervaise Henry authored 6 years ago
  
  098fe606
- Merge branch 'develop' into ds.D17 · dadee431
  Gervaise Henry authored 6 years ago
  
  dadee431
- Fix downsampling in stress and ne · 17d62cb9
  Gervaise Henry authored 6 years ago
  
  17d62cb9
Oct 03, 2018
- Try to fix weird FINAL tSNE gen, double set ident · 5e152ae7
  Gervaise Henry authored 6 years ago
  
  5e152ae7
- Add bash script to run r script · 1e6e3905
  Gervaise Henry authored 6 years ago
  
  1e6e3905
Oct 02, 2018
- Add code for DS.D17 · 0b5eec53
  Gervaise Henry authored 6 years ago
  
  0b5eec53
Oct 01, 2018
- Merge branch 'develop' into 'master' · 25690b09
  Gervaise Henry authored 6 years ago
```
Merge develop into master

See merge request !2
```
  1.0.0
  
  25690b09
- Merge branch 'FACS' into 'develop' · 8ca3e573
  Gervaise Henry authored 6 years ago
```
Merge FACS into Develop

See merge request !1
```
  8ca3e573
- Fix cca hvg intersect · c88d11c4
  Gervaise Henry authored 6 years ago
  
  c88d11c4
Sep 28, 2018
- Update README.md · f372f6c0
  Gervaise Henry authored 6 years ago
  
  f372f6c0
- Add R & bash scripts for D27_FACS · e2ef9276
  Gervaise Henry authored 6 years ago
  
  e2ef9276
- Fix the name of 1 diy fig · 6663b617
  Gervaise Henry authored 6 years ago
  
  6663b617
- Fix lin subset if unknown present · 0a5e6878
  Gervaise Henry authored 6 years ago
  
  0a5e6878
- Fix lin subset if unknown present and re-tSNE St · 4e44d665
  Gervaise Henry authored 6 years ago
  
  4e44d665
- Make Lin identity with St+Unknown merge and diy figs · becb0f99
  Gervaise Henry authored 6 years ago
  
  becb0f99
- Add bash script to run D17_FACS · 361eae03
  Gervaise Henry authored 6 years ago
  
  361eae03
- Remove depreciated code · 8d2c9547
  Gervaise Henry authored 6 years ago
  
  8d2c9547
- Add code to analyze D17_FACS · 8bc6ee2f
  Gervaise Henry authored 6 years ago
  
  8bc6ee2f
Sep 25, 2018
- Fix QuSAGE x-axis and some diy cust cols · e1efc698
  Gervaise Henry authored 6 years ago
  
  e1efc698
Sep 24, 2018
- Remove some depreciated code · d2aadde2
  Gervaise Henry authored 6 years ago
  
  d2aadde2
- Update sc DWS DEGs · 53367009
  Gervaise Henry authored 6 years ago
  
  53367009
- Update analysis, cutoff for nGenes increase due to deeper seq, don't recluster... · 99423e5c
  Gervaise Henry authored 6 years ago
```
Update analysis, cutoff for nGenes increase due to deeper seq, don't recluster subcluster, change genesets to not use readxl
```
  99423e5c
Sep 04, 2018
- Add QuSAGE to mouse lineage from scRNA-Seq (Montoro et al) · 0f46f0cd
  Gervaise Henry authored 6 years ago
  
  0f46f0cd
Sep 02, 2018
- Update dws.sc genesets · be4fecde
  Gervaise Henry authored 6 years ago
  
  be4fecde
- Remove downsampling from pseudotime and fix · 57b870d1
  Gervaise Henry authored 6 years ago
  
  57b870d1
Aug 31, 2018
- Fix Pd bash.script name · 3365f4b0
  Gervaise Henry authored 6 years ago
  
  3365f4b0
- Add bash.script to run Pd workflow · c9108026
  Gervaise Henry authored 6 years ago
  
  c9108026
- Remove depreciated D17 and D17+D27 bash.scripts · c9e3a9bb
  Gervaise Henry authored 6 years ago
  
  c9e3a9bb
- Remove depreciated D17 and D17+D27 workfolows · 71e4c555
  Gervaise Henry authored 6 years ago
  
  71e4c555
- Create Pd analysis workflow and fix some of the outputs · 80d84d6b
  Gervaise Henry authored 6 years ago
  
  80d84d6b
Aug 19, 2018
- Increase QuSAGE downsampleling to 50K · b7016e66
  Gervaise Henry authored 6 years ago
  
  b7016e66
Aug 16, 2018
- Update dws sc deg genesets · 84f10c2f
  Gervaise Henry authored 6 years ago
  
  84f10c2f
- Change stress cutoff from 95% to 90% · 0b7a1102
  Gervaise Henry authored 6 years ago
  
  0b7a1102
- Reduce max nodes from 50 to 45 for parallel processing · c4c43fd9
  Gervaise Henry authored 6 years ago
  
  c4c43fd9
Aug 15, 2018
- Change res for St to 0.3 and change cutoff for NE to 0.1% in D17 · 4115d3bc
  Gervaise Henry authored 6 years ago
  
  4115d3bc
- Fix NE score from using stress score · 161e2414
  Gervaise Henry authored 6 years ago
  
  161e2414
- Fix opt default for D2 --st · e86b3163
  Gervaise Henry authored 6 years ago
  
  e86b3163
- Fix downsampling logic for QuSAGE · 6d4794a3
  Gervaise Henry authored 6 years ago
  
  6d4794a3