Commits · b8336818637dd8b6cc478e09429ace4ce62e6cf4 · Strand Lab / sc-TissueMapper_Pr · GitLab

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May 20, 2018
- Add D27 bash script · b8336818
  Gervaise Henry authored 6 years ago
  
  b8336818
- When use DWS NE geneset, use 100 bins (instead of 50) for NE-Score (PC1) turning point choice · cbe5d3fa
  Gervaise Henry authored 6 years ago
  
  cbe5d3fa
May 19, 2018
- Update DWS sc genesets · 6f0425a9
  Gervaise Henry authored 6 years ago
  
  6f0425a9
- Tweak var.genes/PC/resolution selection · 7c97ee65
  Gervaise Henry authored 6 years ago
  
  7c97ee65
May 16, 2018
- Add Rplot.pdf to .gitignore · 88619b53
  Gervaise Henry authored 6 years ago
  
  88619b53
- Tweak cutoffs for var.genes · f27f7a31
  Gervaise Henry authored 6 years ago
  
  f27f7a31
- Add custom var.gene and %mito cutoffs and PC choices · 81f06892
  Gervaise Henry authored 6 years ago
  
  81f06892
May 14, 2018
- Change find cutoff in PCA for Stress and NE to first local minima after global maxima · 6a0e0cb8
  Gervaise Henry authored 6 years ago
  
  6a0e0cb8
- Fix sc labels for St QuSAGE · 72c642e8
  Gervaise Henry authored 6 years ago
  
  72c642e8
May 13, 2018
- Fix Stress PCA · 80cfe5b5
  Gervaise Henry authored 6 years ago
  
  80cfe5b5
- Fix minor Stress PCA error · 1b84d533
  Gervaise Henry authored 6 years ago
  
  1b84d533
- Change Stress cell determination back to PC1 · 945d7e94
  Gervaise Henry authored 6 years ago
  
  945d7e94
- Merge branch 'master' of git.biohpc.swmed.edu:StrandLab/sc-TissueMapper_Pr · c9dc1124
  Gervaise Henry authored 6 years ago
  
  c9dc1124
- Update D17 bash script · 96eee387
  Gervaise Henry authored 6 years ago
  
  96eee387
- Update DWS sc genesets · 595c7c82
  Gervaise Henry authored 6 years ago
  
  595c7c82
- Convert PC analysis to use KDE instead of K-means · ccc2f2ef
  Gervaise Henry authored 6 years ago
  
  ccc2f2ef
- Change PC's to be top 80% of 25 calculated · b1cd9556
  Gervaise Henry authored 6 years ago
  
  b1cd9556
May 10, 2018
- Update README.md · f4d7c67d
  Gervaise Henry authored 7 years ago
  
  f4d7c67d
- Update README.md *Add ORCID for GHH and DWS · ecce4746
  Gervaise Henry authored 7 years ago
  
  ecce4746
May 09, 2018
- Fix sc_QuSAGE_StSubClust.R for scDEG · 2ed11adf
  Gervaise Henry authored 7 years ago
  
  2ed11adf
- Fix rm(UK) in sc_QuSAGE_StSubClust.R · a438832c
  Gervaise Henry authored 7 years ago
  
  a438832c
- Update bash script FullAnalysis for D17PrF to do higher res analysis · 7b811154
  Gervaise Henry authored 7 years ago
  
  7b811154
- Update genesets with new scDEGs, including new Leu set · 6af28f5f
  Gervaise Henry authored 7 years ago
  
  6af28f5f
- Fix sc_DEG.R to work with identified Leukocyte clusters, also fix other r.scripts to handle them · 33aa56f1
  Gervaise Henry authored 7 years ago
  
  33aa56f1
May 07, 2018
- Update QuSAGE codes to correlate to DWS sc Pop DEGs · c9536e9e
  Gervaise Henry authored 7 years ago
  
  c9536e9e
- Add GO Leukocyte Activation geneset · e4a117e1
  Gervaise Henry authored 7 years ago
  
  e4a117e1
May 03, 2018
- Fix MergeSubClust problem with repeated idents, in particular Endo vs EndoC · c2a5d641
  Gervaise Henry authored 7 years ago
  
  c2a5d641
- Add calculated Epi and St DEGs to geneset from D17PrF · cc1c850e
  Gervaise Henry authored 7 years ago
  
  cc1c850e
- Make pan-Epi and pan-St DEG lists · 27799312
  Gervaise Henry authored 7 years ago
  
  27799312
May 01, 2018
- Add D17PrF DEGs for each population, updating scNE and scStress · 1db9f6a9
  Gervaise Henry authored 7 years ago
  
  1db9f6a9
- Fix sc_DEG.R · e94edb7c
  Gervaise Henry authored 7 years ago
  
  e94edb7c
- Turn off vector.friendly in TSNEPlot because of X11 errors · 384aa380
  Gervaise Henry authored 7 years ago
  
  384aa380
Apr 30, 2018
- Fix Epi QuSAGE · 570d5e70
  Gervaise Henry authored 7 years ago
  
  570d5e70
- Fix St QuSAGE · 8e373bac
  Gervaise Henry authored 7 years ago
  
  8e373bac
- Fix patition name for sc_FullAnalysis-D17PrF.sh · 58e8a049
  Gervaise Henry authored 7 years ago
  
  58e8a049
- Make QuSAGE for Lineage and Epi use DWS 5FC DEGs · 2d5d563b
  Gervaise Henry authored 7 years ago
  
  2d5d563b
- Add 0FC and 5FC DWS DEGs to genesets · e2445447
  Gervaise Henry authored 7 years ago
  
  e2445447
Apr 29, 2018
- Fix DWS DEG's again · 1bfa5d45
  Gervaise Henry authored 7 years ago
  
  1bfa5d45
- Fix DWS DEGs · 04f17171
  Gervaise Henry authored 7 years ago
  
  04f17171
- Add back Cell Cycle analysis to default FullAnalysis sh · e4e48987
  Gervaise Henry authored 7 years ago
  
  e4e48987