Commits · 52a88ace03ea0bba9c2d366ba63f9e13238c7d22 · Patrick Skillman-Lawrence / mhc_rank · GitLab

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May 21, 2016
- updates to dataset size sensitivity script · 52a88ace
  Alex Rubinsteyn authored 8 years ago
  
  52a88ace
- run script through Python 3 · f0fdbc98
  Alex Rubinsteyn authored 8 years ago
  
  f0fdbc98
- lots of tweaks to dataset size sensitivity script · 328d2c12
  Alex Rubinsteyn authored 8 years ago
  
  328d2c12
May 19, 2016
- using stratified sampling for dataset size sensitivity · d122c743
  Alex Rubinsteyn authored 8 years ago
  
  d122c743
- use correct ScoreSet · 91a7ed7d
  Alex Rubinsteyn authored 8 years ago
  
  91a7ed7d
- moved score_set back to experiments since not using it · 499420cc
  Alex Rubinsteyn authored 8 years ago
  
  499420cc
- dont' add --max-ic50 to args twice · 95de1b69
  Alex Rubinsteyn authored 8 years ago
  
  95de1b69
- using mhcflurry.args in dataset-size-sensitivity · f7039fb4
  Alex Rubinsteyn authored 8 years ago
  
  f7039fb4
- added random shrinkage for right censored affinities · 5e820f66
  Alex Rubinsteyn authored 8 years ago
  
  5e820f66
- faster algorithm for converting Dataset to nested dictionary · 8c5a4ca5
  Alex Rubinsteyn authored 8 years ago
  
  8c5a4ca5
May 18, 2016
- added intersection operator to Dataset · 180575f6
  Alex Rubinsteyn authored 8 years ago
  
  180575f6
May 17, 2016
- added cross_validation iterator to Dataset · 4b337b22
  Alex Rubinsteyn authored 8 years ago
  
  4b337b22
- added helpers to Dataset · 37e0372b
  Alex Rubinsteyn authored 8 years ago
  
  37e0372b
May 14, 2016
- don't rely on Params.__dict__ · 361dc375
  Alex Rubinsteyn authored 8 years ago
  
  361dc375
- weirdly some versions of Python don't give __dict__ properties to namedtuples · b42fbf1d
  Alex Rubinsteyn authored 8 years ago
  
  b42fbf1d
- moved Params definition down · e766e86a
  Alex Rubinsteyn authored 8 years ago
  
  e766e86a
- added Params namedtuple, helper to create all combinations of hyperparams, and simple test · f13a6c26
  Alex Rubinsteyn authored 8 years ago
  
  f13a6c26
- added Dataset tests · 2c380b44
  Alex Rubinsteyn authored 8 years ago
  
  2c380b44
May 13, 2016
- Merge pull request #26 from hammerlab/dataset · c894b11f
  Alex Rubinsteyn authored 8 years ago
  
  Generalizing AlleleData into Dataset
  c894b11f
- added min_ arguments to to_dense_pMHC_matrix · a2e339d5
  Alex Rubinsteyn authored 8 years ago
  
  a2e339d5
- use Dataset.from_csv in matrix-completion-accuracy · ca7f46de
  Alex Rubinsteyn authored 8 years ago
  
  ca7f46de
- got rid of matrix completion helpers · a20c6ee0
  Alex Rubinsteyn authored 8 years ago
  
  a20c6ee0
- fixed import path for indices_to_hotshot_encoding · 70588389
  Alex Rubinsteyn authored 8 years ago
  
  70588389
- removing all references to mhcflurry.data from experiments scripts · e5a27666
  Alex Rubinsteyn authored 8 years ago
  
  e5a27666
- always return parser from args helpers · c6e1410f
  Alex Rubinsteyn authored 8 years ago
  
  c6e1410f
- added random negative samples to training · ce1bbda1
  Alex Rubinsteyn authored 8 years ago
  
  ce1bbda1
- added dataset-size-sensitivity script · 7fef98d0
  Alex Rubinsteyn authored 8 years ago
  
  7fef98d0
May 11, 2016
- small fixes · 629baf60
  Alex Rubinsteyn authored 8 years ago
  
  629baf60
May 10, 2016
- working on liberating the titration script from the experiments directory · d1aa3d76
  Alex Rubinsteyn authored 8 years ago
  
  d1aa3d76
- fixed obscure shape bug on empty arrays · fa353a34
  Alex Rubinsteyn authored 8 years ago
  
  fa353a34
May 09, 2016
- fixing training script · 345869a0
  Alex Rubinsteyn authored 8 years ago
  
  345869a0
- added typechecks as requirement · 4f0f0820
  Alex Rubinsteyn authored 8 years ago
  
  4f0f0820
- only train for 200 epochs in unit test · 8a19a894
  Alex Rubinsteyn authored 8 years ago
  
  8a19a894
- imputation seems to be better than not for A0205 · f661d99f
  Alex Rubinsteyn authored 8 years ago
  
  f661d99f
- added back imputation helpers · d9c37838
  Alex Rubinsteyn authored 8 years ago
  
  d9c37838
- moved main impute method onto Dataset · 294f70ee
  Alex Rubinsteyn authored 8 years ago
  
  294f70ee
- debugging imputation with Dataset · bb35d247
  Alex Rubinsteyn authored 8 years ago
  
  bb35d247
May 06, 2016
- changed load_allele_datasets test to work on Datatset, added quality over datasets · 14705f3f
  Alex Rubinsteyn authored 8 years ago
  
  14705f3f
- changing imputation logic to use Dataset · ec233b8c
  Alex Rubinsteyn authored 8 years ago
  
  ec233b8c
- moving encoding to dataset · 9e3c4c8b
  Alex Rubinsteyn authored 8 years ago
  
  9e3c4c8b