Commits · c8ee009878b3780143d024f820a149f2231e7906 · Strand Lab / sc-TissueMapper

16 Feb, 2020 2 commits
- Use res 5 for lin in hu mu singelr · c8ee0098
  Gervaise Henry authored Feb 16, 2020
  
  c8ee0098
- Add newest version (GRCm38.p6) of hu/mu orthology · 7e720ca8
  Gervaise Henry authored Feb 16, 2020
  
  7e720ca8
08 Feb, 2020 1 commit
- Add NE and QuSAGE to mus DIY · d37d5534
  Gervaise Henry authored Feb 08, 2020
  
  d37d5534
03 Feb, 2020 1 commit
- Cleanup · e3622098
  Gervaise Henry authored Feb 03, 2020
  
  e3622098
25 Jan, 2020 1 commit
- hu-mu comparison and DIY for muPrUr · 4ede93c5
  Gervaise Henry authored Jan 25, 2020
  
  4ede93c5
14 Nov, 2019 1 commit
- Add DIY scripts · 22f0cc50
  Gervaise Henry authored Nov 14, 2019
  
  22f0cc50
24 Oct, 2019 1 commit
- Change EpiFMSt SingleR res to 5 · 1bf1aac1
  Gervaise Henry authored Oct 24, 2019
  
  1bf1aac1
23 Oct, 2019 3 commits
- Save singler score heatmap not-normalized version · 8b2d9eb6
  Gervaise Henry authored Oct 23, 2019
  
  8b2d9eb6
- Comment out Shiny prep from mu pr singler · 65f46d3d
  Gervaise Henry authored Oct 23, 2019
  
  65f46d3d
- Mod some settings for hu mu singler · 14cb5c4b
  Gervaise Henry authored Oct 23, 2019
  
  14cb5c4b
21 Oct, 2019 1 commit
- Add hu to mu Pr label transfer with SingleR · c1e3d157
  Gervaise Henry authored Oct 21, 2019
  
  c1e3d157
03 Oct, 2019 1 commit
- Change SingleR lin to cluster mode res 0.5 · 4f098d2c
  Gervaise Henry authored Oct 03, 2019
  
  4f098d2c
01 Oct, 2019 1 commit
- Change lin SingleR to single cell mode, and remove immgen v1 data from mouse reference · 992536a9
  Gervaise Henry authored Oct 01, 2019
  
  992536a9
28 Sep, 2019 2 commits
- Add Tissue_stem_cells to FMSt SingleR · a11f3253
  Gervaise Henry authored Sep 28, 2019
  
  a11f3253
- Change Lin SingleR res to 0.1 · c3bb6eb6
  Gervaise Henry authored Sep 28, 2019
  
  c3bb6eb6
18 Sep, 2019 1 commit
- Run filters consecutively · 5d1064b7
  Gervaise Henry authored Sep 18, 2019
  
  5d1064b7
16 Sep, 2019 2 commits
- Remove monocle from library load for singler · e684cfb5
  Gervaise Henry authored Sep 16, 2019
  
  e684cfb5
- Finish shiny output for raw and id including deg · da218911
  Gervaise Henry authored Sep 16, 2019
  
  da218911
12 Sep, 2019 1 commit
- Add back ribo cutoff, set res for lin singler to 1 · ba638858
  Gervaise Henry authored Sep 12, 2019
  
  ba638858
11 Sep, 2019 1 commit
- Add back a total filtered object to run and lower res for lin singler id to 0.1 · b9e9740f
  Gervaise Henry authored Sep 11, 2019
  
  b9e9740f
09 Sep, 2019 2 commits
- Change lin SingleR res to 0.5 · f753547f
  Gervaise Henry authored Sep 09, 2019
  
  f753547f
- Change resolution from 5 to 1 for lin SingleR · a6795c4b
  Gervaise Henry authored Sep 09, 2019
  
  a6795c4b
05 Sep, 2019 4 commits
- Fix Pr SingleR · 2ebc18b1
  Gervaise Henry authored Sep 05, 2019
  
  2ebc18b1
- Generalize subset St · 00b3b797
  Gervaise Henry authored Sep 05, 2019
  
  00b3b797
- Fix scDWSpr SingleR decision and change pca+clustering to try · ff4966e9
  Gervaise Henry authored Sep 05, 2019
  
  ff4966e9
- Change Neurone to Tissue_Stem_cell in SingleR and add organ param to bash script for SingleR · 87ff20ed
  Gervaise Henry authored Sep 05, 2019
  
  87ff20ed
04 Sep, 2019 2 commits
- Fix SingleR for mus and clean up some non-Pr analysis · 31368fa0
  Gervaise Henry authored Sep 04, 2019
  
  31368fa0
- Only run scDWSpr in SingleR if pr, start setting up to be able to handle mu data · acc40599
  Gervaise Henry authored Sep 04, 2019
  
  acc40599
22 Aug, 2019 2 commits
- Try res of 5 for lin cluster hpca · 3fe481b6
  Gervaise Henry authored Aug 22, 2019
  
  3fe481b6
- Add additional cell types to lin categories and use res 1 for lin cluster hpca · f6eb2e88
  Gervaise Henry authored Aug 22, 2019
  
  f6eb2e88
21 Aug, 2019 5 commits
- Add Leu to pan St subcluster · dc10b020
  Gervaise Henry authored Aug 21, 2019
  
  dc10b020
- Allow singler to run on BioHPC 128GB node and reduce workers to 10 · 9bed1ab0
  Gervaise Henry authored Aug 21, 2019
  
  9bed1ab0
- Change res to 0.75 for lin cluster hpca · db15eaa8
  Gervaise Henry authored Aug 21, 2019
  
  db15eaa8
- Change res for lin cluster hpca singler to 1, and recluster full range for subclustered lineages · 582a9445
  Gervaise Henry authored Aug 21, 2019
  
  582a9445
- Update SingleR to new version · 883e1560
  Gervaise Henry authored Aug 21, 2019
  
  883e1560
15 Aug, 2019 1 commit
- Set cores to 23 for 256GB nodes for SingleR · 3743a5db
  Gervaise Henry authored Aug 15, 2019
  
  3743a5db
11 Aug, 2019 1 commit
- Only use samples which were sequenced deep, merge samples less than 750 cells b4 CCA · 407e9306
  Gervaise Henry authored Aug 11, 2019
  
  407e9306
17 Jul, 2019 1 commit
- Set SingleR project name by cli · 1179ce77
  Gervaise Henry authored Jul 17, 2019
  
  1179ce77
16 Jul, 2019 1 commit
- Update cca with new Seurat recommendations · 7fd5e495
  Gervaise Henry authored Jul 16, 2019
  
  7fd5e495
05 Jun, 2019 1 commit
- Add back Epi sub labels to full seurat object · d8e3c4e2
  Gervaise Henry authored Jun 05, 2019
  
  d8e3c4e2