Metadata-Version: 1.1
Name: vaxrank
Version: 0.2.6
Summary: Mutant peptide ranking for personalized cancer vaccines
Home-page: https://github.com/hammerlab/vaxrank
Author: Alex Rubinsteyn
Author-email: alex {dot} rubinsteyn {at} gmail {dot} com
License: http://www.apache.org/licenses/LICENSE-2.0.html
Description: |Build Status| |Coverage Status|
        
        vaxrank
        =======
        
        Selection of mutated protein fragments for therapeutic personalized
        cancer vaccines.
        
        Usage
        -----
        
        .. code:: sh
        
        
            vaxrank \
                --vcf test/data/b16.f10/b16.vcf \
                --bam test/data/b16.f10/b16.combined.bam \
                --vaccine-peptide-length 25 \
                --mhc-predictor netmhc \
                --mhc-alleles H2-Kb,H2-Db \
                --padding-around-mutation 5 \
                --output-ascii-report vaccine-peptides.txt \
                --output-pdf-report vaccine-peptides.pdf \
                --output-html-report vaccine-peptides.html
        
        Installation
        ------------
        
        Vaxrank can be installed using
        `pip <https://packaging.python.org/installing/#use-pip-for-installing>`__:
        
        ::
        
            pip install vaxrank
        
        Note: to generate PDF reports, you first need to install
        `wkhtmltopdf <http://wkhtmltopdf.org/>`__, which you can do (on OS X)
        like so:
        
        ::
        
            brew install Caskroom/cask/wkhtmltopdf
        
        .. |Build Status| image:: https://travis-ci.org/hammerlab/vaxrank.svg?branch=master
           :target: https://travis-ci.org/hammerlab/vaxrank
        .. |Coverage Status| image:: https://coveralls.io/repos/github/hammerlab/vaxrank/badge.svg?branch=master
           :target: https://coveralls.io/github/hammerlab/vaxrank?branch=master
        
Platform: UNKNOWN
Classifier: Development Status :: 3 - Alpha
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
