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  1. Aug 03, 2017
  2. Jul 31, 2017
  3. Jul 30, 2017
  4. 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
  5. May 24, 2017
  6. May 23, 2017
  7. May 22, 2017
  8. May 18, 2017
  9. May 17, 2017
  10. Mar 24, 2017
  11. Feb 10, 2017
  12. Feb 08, 2017
  13. Jan 09, 2017
  14. Sep 26, 2016
  15. Sep 15, 2016
    • Tim O'Donnell's avatar
    • 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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