Metadata-Version: 1.1
Name: mhcflurry
Version: 1.0.0
Summary: MHC Binding Predictor
Home-page: https://github.com/hammerlab/mhcflurry
Author: Tim O'Donnell and Alex Rubinsteyn
Author-email: timodonnell@gmail.com
License: http://www.apache.org/licenses/LICENSE-2.0.html
Description-Content-Type: UNKNOWN
Description: |Build Status| |Coverage Status|
        
        mhcflurry
        =========
        
        `MHC I <https://en.wikipedia.org/wiki/MHC_class_I>`__ ligand prediction
        package with competitive accuracy and a fast and
        `documented <http://www.hammerlab.org/mhcflurry/>`__ implementation.
        
        MHCflurry supports Class I peptide/MHC binding affinity prediction using
        ensembles of allele-specific models. It runs on Python 2.7 and 3.4+
        using the `keras <https://keras.io>`__ neural network library. It
        exposes
        `command-line <http://www.hammerlab.org/mhcflurry/commandline_tutorial.html>`__
        and `Python
        library <http://www.hammerlab.org/mhcflurry/python_tutorial.html>`__
        interfaces.
        
        If you find MHCflurry useful in your research please cite:
        
            O’Donnell, T. et al., 2017. MHCflurry: open-source class I MHC
            binding affinity prediction. bioRxiv. Available at:
            http://www.biorxiv.org/content/early/2017/08/09/174243.
        
        Installation (pip)
        ------------------
        
        Install the package:
        
        ::
        
            $ pip install mhcflurry
        
        Then download our datasets and trained models:
        
        ::
        
            $ mhcflurry-downloads fetch
        
        You can now generate predictions:
        
        ::
        
            $ mhcflurry-predict \
                   --alleles HLA-A0201 HLA-A0301 \
                   --peptides SIINFEKL SIINFEKD SIINFEKQ \
                   --out /tmp/predictions.csv \
                   
            Wrote: /tmp/predictions.csv
        
        See the `documentation <http://www.hammerlab.org/mhcflurry/>`__ for more
        details.
        
        .. |Build Status| image:: https://travis-ci.org/hammerlab/mhcflurry.svg?branch=master
           :target: https://travis-ci.org/hammerlab/mhcflurry
        .. |Coverage Status| image:: https://coveralls.io/repos/github/hammerlab/mhcflurry/badge.svg?branch=master
           :target: https://coveralls.io/github/hammerlab/mhcflurry?branch=master
        
Platform: UNKNOWN
Classifier: Development Status :: 4 - Beta
Classifier: Environment :: Console
Classifier: Operating System :: OS Independent
Classifier: Intended Audience :: Science/Research
Classifier: License :: OSI Approved :: Apache Software License
Classifier: Programming Language :: Python
Classifier: Topic :: Scientific/Engineering :: Bio-Informatics
