Commits · c9e89845045cbb9b606ac759c47b4c032a377357 · Patrick Skillman-Lawrence / mhc_rank

Feb 12, 2018
- add filter_networks function · c9e89845
  Tim O'Donnell authored 7 years ago
  
  c9e89845
Feb 10, 2018
- Continually save models as they are trained, even when running in parallel · 220aaf31
  Tim O'Donnell authored 7 years ago
  
  220aaf31
Feb 09, 2018
- update comments · f472d4b7
  Tim O'Donnell authored 7 years ago
  
  f472d4b7
Feb 08, 2018
- Switch back to mean instead of robust_mean default · 612fe5c8
  Tim O'Donnell authored 7 years ago
  
  612fe5c8
Feb 06, 2018
- update docs · fefebccd
  Tim O'Donnell authored 7 years ago
  
  fefebccd
- fixes for pan · 5a002dba
  Tim O'Donnell authored 7 years ago
  
  5a002dba
- lazy-load model weights · 33e8c10a
  Tim O'Donnell authored 7 years ago
  
  33e8c10a
- better handling of default class1 models configuration · b3840422
  Tim O'Donnell authored 7 years ago
  
  b3840422
- update · 48b5b7ef
  Tim O'Donnell authored 7 years ago
  
  48b5b7ef
- Add robust mean as centrality measure to combine predictions · 26e6d927
  Tim O'Donnell authored 7 years ago
  
  26e6d927
- cache peptide encoding in percentile rank calibration · 1cae85f6
  Tim O'Donnell authored 7 years ago
  
  1cae85f6
- redo parallelization implementation of percentile rank calibration · 098f5e71
  Tim O'Donnell authored 7 years ago
  
  098f5e71
- update · ad9a450e
  Tim O'Donnell authored 7 years ago
  
  ad9a450e
- update · 672afedf
  Tim O'Donnell authored 7 years ago
  
  672afedf
- memory usage hack · ebc915a6
  Tim O'Donnell authored 7 years ago
  
  ebc915a6
- Support calibrating percentile ranks in parallel · 5186ccf0
  Tim O'Donnell authored 7 years ago
  
  5186ccf0
- Swtich to parallel training, support progress bar · 67f17c27
  Tim O'Donnell authored 7 years ago
  
  67f17c27
- fix tests · 57e403e7
  Tim O'Donnell authored 7 years ago
  
  57e403e7
- fixes · 73ddb9d2
  Tim O'Donnell authored 7 years ago
  
  73ddb9d2
- First cut at model selection and training on data with inequalities · 1a7264ba
  Tim O'Donnell authored 7 years ago
  
  1a7264ba
Dec 21, 2017
- docs update · 6485d7dd
  Tim O'Donnell authored 7 years ago
  
  6485d7dd
- more docs · 5a7a65f8
  Tim O'Donnell authored 7 years ago
  
  5a7a65f8
Dec 19, 2017
- Better docstrings · ae3d7e2f
  Tim O'Donnell authored 7 years ago
  
  ae3d7e2f
Dec 10, 2017
- Refactor to simplify directory structure · 4ea4173a
  Tim O'Donnell authored 7 years ago
  
  4ea4173a
Dec 04, 2017
- Address code review comments · 0f9394e2
  Tim O'Donnell authored 7 years ago
  
  0f9394e2
Nov 28, 2017
- better progress printing · e062613c
  Tim O'Donnell authored 7 years ago
  
  e062613c
- Clearer output during training · c0fbebe1
  Tim O'Donnell authored 7 years ago
  
  c0fbebe1
- implement Class1AffinityPredictor.merge() method · c6990666
  Tim O'Donnell authored 7 years ago
  
  c6990666
Nov 27, 2017
- peptide encoding optimization · cbb649d6
  Tim O'Donnell authored 7 years ago
  
  cbb649d6
Nov 26, 2017
- more efficient peptide encoding in calibrate_percentile_ranks · 1ca484c7
  Tim O'Donnell authored 7 years ago
  
  1ca484c7
Nov 25, 2017
- Fix tests, add logging to calibrate_percentile_ranks, add SIGUSR1 trick to train command · ac3f874f
  Tim O'Donnell authored 7 years ago
  
  ac3f874f
- README update (mhctools mention) and percentile rank tweaks · 72362eb2
  Tim O'Donnell authored 7 years ago
  
  72362eb2
Nov 24, 2017
- fix · 2b2ce0ce
  Tim O'Donnell authored 7 years ago
  
  2b2ce0ce
- Add throw argument to percentile_ranks · e4c21bcb
  Tim O'Donnell authored 7 years ago
  
  e4c21bcb
Nov 15, 2017

tweak · 868caf01
Tim O'Donnell authored 7 years ago

868caf01

Tim O'Donnell authored 7 years ago

* First cut of supporting quantiles ("percent ranks") per allele. Closes #87.
* Some refactoring of amino_acid.py

This builds on #114

99e74eeb

May 25, 2017
- small tweaks · 62794808
  Tim O'Donnell authored 7 years ago
  
  62794808
May 24, 2017
- Update example notebook and fix tests · 7f6bffeb
  Tim O'Donnell authored 7 years ago
  
  7f6bffeb
- Fix antigen processing errors, fix lint issues · 4d9c164b
  Tim O'Donnell authored 7 years ago
  
  4d9c164b
- updates · 37aa3f37
  Tim O'Donnell authored 7 years ago
  
  37aa3f37