Commits · a17bcce1730b565ed7c4bb97e5eabe829e524ab0 · Patrick Skillman-Lawrence / mhc_rank · GitLab

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Feb 17, 2016
- moving more functionality from scripts into the class1 predictor class · a17bcce1
  Alex Rubinsteyn authored 9 years ago
  
  a17bcce1
- lots of fixes to multi-length peptide code and evaluation of synthetic data · 6d95f501
  Alex Rubinsteyn authored 9 years ago
  
  6d95f501
- moved helpers for allele_similarities and synthetic_data into own modules,... · 07cba541
  Alex Rubinsteyn authored 9 years ago
  
  moved helpers for allele_similarities and synthetic_data into own modules, added script for best synthetic smoothing coef which 0.01
  07cba541
- added script to check for best smoothing coef by Kendall's tau coefficient with true data · 71ae6b4d
  Alex Rubinsteyn authored 9 years ago
  
  71ae6b4d
- added unit tests for peptide shortening and extension · 4b0fe361
  Alex Rubinsteyn authored 9 years ago
  
  4b0fe361
- moving more flexible fixed length peptide helpers into main repo from experiments · 8c83236e
  Alex Rubinsteyn authored 9 years ago
  
  8c83236e
Feb 16, 2016
- Merge pull request #10 from hammerlab/df-peptide-length · 5a856ce8
  Alex Rubinsteyn authored 9 years ago
  
  Fixes #9 peptide_length parameter is not passed
  5a856ce8
- Merge pull request #8 from hammerlab/pickle-py3 · e5a5655c
  Alex Rubinsteyn authored 9 years ago
  
  Python3 pickle error with bytes
  e5a5655c
Dec 13, 2015
- Fixes #9; peptide_length parameter is not passed · 8db4bf3e
  Arun Ahuja authored 9 years ago
  
  8db4bf3e
- py3 pickle error; needs bytes flag · bca8ccf5
  Arun Ahuja authored 9 years ago
  
  bca8ccf5
Nov 13, 2015
- split DataFrame loading from allele dataset creation · 70098539
  Alex Rubinsteyn authored 9 years ago
  
  70098539
Nov 12, 2015
- adding matrix completion based similarity matrix dataset generation · 20834aa8
  Alex Rubinsteyn authored 9 years ago
  
  20834aa8
Nov 04, 2015
- use smaller networks as the default with higher default IC50 · 47e58007
  Alex Rubinsteyn authored 9 years ago
  
  47e58007
- added script to check dataset size sensitivity · d4043fb3
  Alex Rubinsteyn authored 9 years ago
  
  d4043fb3
Nov 03, 2015
- added matrix completion for binding affinities · ab2dc6eb
  Alex Rubinsteyn authored 9 years ago
  
  ab2dc6eb
Oct 30, 2015
- use stratified k-fold to build ensembles for test accuracy · 4935045d
  Alex Rubinsteyn authored 9 years ago
  
  4935045d
- added ensemble to test evaluation script · 11d2d90f
  Alex Rubinsteyn authored 9 years ago
  
  11d2d90f
Oct 28, 2015
- Merge branch 'nips-2015' · 96dadbaf
  Alex Rubinsteyn authored 9 years ago
  
  96dadbaf
- write out extended test sets with new predictions · 4a1cad10
  Alex Rubinsteyn authored 9 years ago
  
  4a1cad10
- fixed multi-length predictions in script that extends a test set with a mhcflurry column · a9b105db
  Alex Rubinsteyn authored 9 years ago
  
  a9b105db
- fixed small bug in expand_9mer_peptides · ca1dbd9e
  Alex Rubinsteyn authored 9 years ago
  
  ca1dbd9e
Oct 26, 2015
- Merge pull request #4 from hammerlab/nips-2015 · a04d49f4
  Alex Rubinsteyn authored 9 years ago
  
  False start of a NIPS paper
  a04d49f4
- inching toward evaluating test data · 09e7fc17
  Alex Rubinsteyn authored 9 years ago
  
  09e7fc17
Oct 23, 2015
- fix amino acid letter order · 20623c17
  Alex Rubinsteyn authored 9 years ago
  
  20623c17
- json serialization for models · e112e7bc
  Alex Rubinsteyn authored 9 years ago
  
  e112e7bc
- moved expand_9mer_peptides to common · 1cbd1946
  Alex Rubinsteyn authored 9 years ago
  
  1cbd1946
Oct 22, 2015
- upgrading keras, trying to figure out why output changes · 8796764c
  Alex Rubinsteyn authored 9 years ago
  
  8796764c
- added missing import · 7d889baf
  Alex Rubinsteyn authored 9 years ago
  
  7d889baf
- refactoring · 3beb40ec
  Alex Rubinsteyn authored 9 years ago
  
  3beb40ec
Oct 21, 2015
- added script to extend test results with mhcflurry · c9517c6a
  Alex Rubinsteyn authored 9 years ago
  
  c9517c6a
- moved fixed dataset paths into own module · 8c8ee19b
  Alex Rubinsteyn authored 9 years ago
  
  8c8ee19b
Oct 20, 2015
- no need to pass cutoff to f1 · a2857ed2
  Alex Rubinsteyn authored 9 years ago
  
  a2857ed2
Oct 19, 2015
- added combined CSVs for BLIND test dataset · 35b9d0b6
  Alex Rubinsteyn authored 9 years ago
  
  35b9d0b6
- added exec flag to scripts · 603a524d
  Alex Rubinsteyn authored 9 years ago
  
  603a524d
- added script to summarize performance on test data of multiple classifiers · 32d6b970
  Alex Rubinsteyn authored 9 years ago
  
  32d6b970
Oct 17, 2015
- added script to combine multiple test set results · 6fc1f9cd
  Alex Rubinsteyn authored 9 years ago
  
  6fc1f9cd
- moved script for evaluating predictors on separate data to different file · 6964235d
  Alex Rubinsteyn authored 9 years ago
  
  6964235d
Oct 15, 2015
- reshape test data to have one column per predictor · e2cb6c17
  Alex Rubinsteyn authored 9 years ago
  
  e2cb6c17
- adding script to load multiple test dataset · 53d5bc51
  Alex Rubinsteyn authored 9 years ago
  
  53d5bc51
Oct 14, 2015
- Merge branch 'nips-2015' of github.com:hammerlab/mhcflurry into nips-2015 · 435e7c78
  Alex Rubinsteyn authored 9 years ago
  
  435e7c78