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  1. Aug 03, 2017
  2. Jul 31, 2017
  3. Jul 27, 2017
    • Tim O'Donnell's avatar
      Script and experiment updates · 7f1e6c99
      Tim O'Donnell authored
      * Add more experiments to models_class1_experiments
      * Add `--quantitative-only` flag to training script
      * Add `--no-throw` flag to prediction script
      7f1e6c99
  4. May 24, 2017
  5. May 23, 2017
  6. May 22, 2017
  7. May 17, 2017
  8. Feb 08, 2017
  9. Sep 15, 2016
    • Tim O'Donnell's avatar
      Big refactor to prepare for release · 942601b3
      Tim O'Donnell authored
      Lazily putting this all in one commit.
      
      * infrastructure for downloading datasets and published trained models (the `mhcflurry-downloads` command)
      * docs and scripts (in `downloads-generation`) to generate the pubilshed datsets and trained models
      * parallelized cross validation and model training implementation, including support for imputation (based on the old mhcflurry-cloud repo, which is now gone)
      * a single front-end script for class1 allele-specific cross validation and model training / testing (`mhcflurry-class1-allele-specific-cv-and-train`)
      * refactor how we deal with hyper-parameters and how we instantiate Class1BindingPredictors
      * make Class1BindingPredictor pickleable and remove old serialization code
      * move code particular to class 1 allele-specific predictors into its own submodule
      * remove unused code including arg parsing, plotting, and ensembles
      * had to bump the binding prediction threshold for the Titin1 epitope from 500 to 700, as this test was sporadically failing for me (see test_known_class1_epitopes.py)
      * Attempt to make tests involving randomness somewhat more reproducible by setting numpy random seed
      * update README
      942601b3
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