Commits · 908e1bbc3f58c861634a598b9bedbc90d577dec3 · Strand Lab / sc-TissueMapper

12 Jan, 2019 8 commits
- Fix redudnant rm for sc_QC parameters · 908e1bbc
  Gervaise Henry authored Jan 12, 2019
  
  908e1bbc
- Fix saves · 196cb978
  Gervaise Henry authored Jan 12, 2019
  
  196cb978
- Put sc_QC parameters into the call · 5742d25e
  Gervaise Henry authored Jan 12, 2019
  
  5742d25e
- Add set.seed to QuSAGE downsample · 0fc0965a
  Gervaise Henry authored Jan 12, 2019
  
  0fc0965a
- Remove ridge plot for cell cycle anchors · 0d605c79
  Gervaise Henry authored Jan 12, 2019
  
  0d605c79
- Fix error from previous commit · abc34a97
  Gervaise Henry authored Jan 12, 2019
  
  abc34a97
- Remove more as.matrix to prevent memory errors · 46c8acdb
  Gervaise Henry authored Jan 12, 2019
  
  46c8acdb
- Fix %mito calculation to use the data as sparse matrix so it will not cause memory error · d5bfc948
  Gervaise Henry authored Jan 12, 2019
  
  d5bfc948
11 Jan, 2019 1 commit
- Working initial version: works with Pd · 393ed35d
  Gervaise Henry authored Jan 11, 2019
  
  393ed35d
15 Dec, 2018 2 commits
- Compress all gitignore's · 7f4b6797
  Gervaise Henry authored Dec 15, 2018
  
  7f4b6797
- Use .gitignore's from GitHub · 4475bb05
  Gervaise Henry authored Dec 15, 2018
  
  4475bb05
10 Dec, 2018 1 commit
- Update README.md · d4c4f74d
  Gervaise Henry authored Dec 10, 2018
  
  d4c4f74d
07 Dec, 2018 2 commits
- Remove historical files and save analysis/DATA subdir · e492acbc
  Gervaise Henry authored Dec 07, 2018
  
  e492acbc
- Merge branch 'develop' into 'master' · db82cafc
  Gervaise Henry authored Dec 07, 2018
```
Develop

See merge request !1
```
  db82cafc
04 Dec, 2018 1 commit
- Revert R version to fixed stable version: 3.4.1-gccmkl · dab5ccad
  Gervaise Henry authored Dec 04, 2018
  
  dab5ccad
19 Nov, 2018 1 commit
- Update dws sc genesets... again · fee6d690
  Gervaise Henry authored Nov 19, 2018
  
  fee6d690
18 Nov, 2018 1 commit
- Use all cells for lung liniage QuSAGE · 69739b22
  Gervaise Henry authored Nov 18, 2018
  
  69739b22
16 Nov, 2018 2 commits
- Update dws sc deg · 816d8fff
  Gervaise Henry authored Nov 16, 2018
  
  816d8fff
- Update README.md · a5df5f38
  Gervaise Henry authored Nov 16, 2018
  
  a5df5f38
15 Nov, 2018 1 commit
- Update README.md · 6bc9af29
  Gervaise Henry authored Nov 15, 2018
  
  6bc9af29
10 Nov, 2018 1 commit
- Revert all analysis to use dws bulk pan Epi and St genelists for lin ID with QuSAGE · ca6ba2ef
  Gervaise Henry authored Nov 10, 2018
  
  ca6ba2ef
06 Nov, 2018 1 commit
- Decrease stringency for pan Epi/St generation in Pd and increase min pop downsample for FACS · 0f6497ca
  Gervaise Henry authored Nov 06, 2018
  
  0f6497ca
05 Nov, 2018 2 commits
- Update dws.sc pan Epi and St DEGs · 748625ec
  Gervaise Henry authored Nov 05, 2018
  
  748625ec
- Filter pop specific genes from pan Epi and St DEGs · fc1e27a3
  Gervaise Henry authored Nov 05, 2018
  
  fc1e27a3
04 Nov, 2018 2 commits
- Don't downsample FACS analysis · e42b9eea
  Gervaise Henry authored Nov 04, 2018
  
  e42b9eea
- Revert Epi and St dws.sc genesets and how they are generated · 988b20ad
  Gervaise Henry authored Nov 04, 2018
  
  988b20ad
03 Nov, 2018 7 commits
- Update dws.sc genes · dd3d77bc
  Gervaise Henry authored Nov 03, 2018
  
  dd3d77bc
- Merge branch 'StressCompare' into 'develop' · ead1c737
  Gervaise Henry authored Nov 03, 2018
```
Stress compare

See merge request sc-TissueMapper_Pr!5
```
  ead1c737
- Fix output folders for StressCompare and add to Pd.sh · 696ac6fb
  Gervaise Henry authored Nov 03, 2018
  
  696ac6fb
- Merge devleop into StressCompare · 68efa3e4
  Gervaise Henry authored Nov 03, 2018
  
  68efa3e4
- Increase stringency for pan Epi and St DEG calc to 75% of pops and 2FC · c0718701
  Gervaise Henry authored Nov 03, 2018
  
  c0718701
- Update README.md · c3a845d3
  Gervaise Henry authored Nov 03, 2018
  
  c3a845d3
- Update readme.md · 1bd6628c
  Gervaise Henry authored Nov 03, 2018
  
  1bd6628c
02 Nov, 2018 7 commits
- Make DEG try · 31988046
  Gervaise Henry authored Nov 02, 2018
  
  31988046
- Fix DEG on DS.D17 · e1789e83
  Gervaise Henry authored Nov 02, 2018
  
  e1789e83
- Don't do cell cycle analysis for DS.D17 · ef38fbfd
  Gervaise Henry authored Nov 02, 2018
  
  ef38fbfd
- Revert to high RAM nodes and new R/3.4.1 · 6dad81ef
  Gervaise Henry authored Nov 02, 2018
  
  6dad81ef
- Revert to stable old R/3.4.1 · 71d62d0f
  Gervaise Henry authored Nov 02, 2018
  
  71d62d0f
- Allow DS bash scripts to use any node · 4d30cda6
  Gervaise Henry authored Nov 02, 2018
  
  4d30cda6
- Use rebuilt R/3.4.1 · ed753d6e
  Gervaise Henry authored Nov 02, 2018
  
  ed753d6e