Commits · 5a49ba81273614ac3a0a44c24b8c8bdba3f65c6e · github_fork / Presto 20250701

Browse files

Apr 28, 2020
- fixed bug, removed documentation for old functions · 5a49ba81
  Ilya Korsunsky authored Apr 28, 2020
  
  5a49ba81
- first commit of functions for cached lme4 matrix results and analyses · 594a67fb
  Ilya Korsunsky authored Apr 27, 2020
  
  594a67fb
Apr 24, 2020
- fixed treatment of adding back residuals in regress_out_one_gene · 16bc0d7c
  Ilya Korsunsky authored Apr 23, 2020
  
  16bc0d7c
Apr 22, 2020
- add back residuals to poisson predicted values · 910b8669
  Ilya Korsunsky authored Apr 22, 2020
  
  910b8669
- fixed bug in glmm.R · ab45bb97
  Ilya Korsunsky authored Apr 21, 2020
  
  ab45bb97
- functions to regress out random effects · fa5c85e1
  Ilya Korsunsky authored Apr 21, 2020
  
  fa5c85e1
Apr 20, 2020
- error checking, try again · 8b75e461
  Ilya Korsunsky authored Apr 20, 2020
  
  8b75e461
- error catching for when glmer fails · 8e72f6f4
  Ilya Korsunsky authored Apr 20, 2020
  
  8e72f6f4
- fixed some bugs · 6b129f99
  Ilya Korsunsky authored Apr 20, 2020
  
  6b129f99
- initial commit of lme4 DGE models and meta analysis functions · b1a09bdd
  Ilya Korsunsky authored Apr 20, 2020
  
  b1a09bdd
Feb 25, 2020
- allow sum and mean collapsing · 7f63f960
  Ilya Korsunsky authored Feb 24, 2020
  
  7f63f960
Nov 19, 2019
- added params to within · 3e31a977
  Ilya Korsunsky authored Nov 18, 2019
  
  3e31a977
Nov 17, 2019
- within analysis · 0f167bff
  Ilya Korsunsky authored Nov 16, 2019
  
  0f167bff
- added options to do DGE within clusters · 156062bc
  Ilya Korsunsky authored Nov 16, 2019
  
  156062bc
Nov 16, 2019
- filter genes locally in the pairwise analysis · b5a71b4f
  Ilya Korsunsky authored Nov 15, 2019
  
  b5a71b4f
- filter genes locally in the pairwise analysis · de9b094a
  Ilya Korsunsky authored Nov 15, 2019
  
  de9b094a
Nov 15, 2019
- added keep_n option to collapse counts · dfde6966
  Ilya Korsunsky authored Nov 14, 2019
  
  dfde6966
Nov 13, 2019
- fixed code in pseudobulk.R · 09036560
  Ilya Korsunsky authored Nov 13, 2019
  
  09036560
Nov 09, 2019
- added min_cells_per_group to collapse counts function · 303ea288
  Ilya Korsunsky authored Nov 08, 2019
  
  303ea288
- added functions to do pairwise group comparisons · ad54ceab
  Ilya Korsunsky authored Nov 08, 2019
  
  ad54ceab
- pseudobulk notebook · 75a11045
  Ilya Korsunsky authored Nov 08, 2019
  
  75a11045
Nov 07, 2019
- Update pseudobulk.R · 0aa8def4
  ilyakorsunsky authored Nov 06, 2019
  0aa8def4
- Update pseudobulk.R · d7c0ddf1
  ilyakorsunsky authored Nov 06, 2019
  d7c0ddf1
Oct 17, 2019
- removed print statement · f9fe79d9
  Ilya Korsunsky authored Oct 17, 2019
  
  f9fe79d9
- fixed background collapsing · cf92cadf
  Ilya Korsunsky authored Oct 17, 2019
  
  cf92cadf
- collapse_counts bug fix · 2fa61cd5
  Ilya Korsunsky authored Oct 17, 2019
  
  2fa61cd5
- specified Matrix version of rowSums · 9a76f060
  Ilya Korsunsky authored Oct 16, 2019
  
  9a76f060
Oct 16, 2019
- forget to cast as factor in compute_hash · de0c2af7
  Ilya Korsunsky authored Oct 15, 2019
  
  de0c2af7
- more a more stable hash function · ae239018
  Ilya Korsunsky authored Oct 15, 2019
  
  ae239018
Oct 15, 2019
- Updated cluster_ to cluster · 64fca625
  ilyakorsunsky authored Oct 14, 2019
  
  64fca625
- Merge pull request #3 from immunogenomics/pseudobulk · 7d6c7fc6
  ilyakorsunsky authored Oct 14, 2019
  7d6c7fc6
- pseudobulk with DESeq2 methods · 56fd7d07
  Ilya Korsunsky authored Oct 14, 2019
  
  56fd7d07
Oct 14, 2019
- do not track htmls · c2830519
  Ilya Korsunsky authored Oct 14, 2019
  
  c2830519
May 29, 2019
- nothing · 4b96fc86
  Ilya Korsunsky authored May 28, 2019
  
  4b96fc86
- removed inst/doc from ignore to allow vignettes · 90af1d00
  Ilya Korsunsky authored May 28, 2019
  
  90af1d00
- changed to lowercase presto · 51eefa74
  Ilya Korsunsky authored May 28, 2019
  
  51eefa74
May 16, 2019
- fixed bug in tidy_results function · 57339319
  Ilya Korsunsky authored May 15, 2019
  
  57339319
- changed name to Presto · 1681204e
  Ilya Korsunsky authored May 15, 2019
  
  1681204e
May 12, 2019
- CRAN-RELEASE file · 57150900
  Ilya Korsunsky authored May 11, 2019
  
  57150900
May 09, 2019
- CRAN stuff · 0574596d
  Ilya Korsunsky authored May 08, 2019
  
  0574596d

Admin message

Commits · 5a49ba81273614ac3a0a44c24b8c8bdba3f65c6e