Metadata-Version: 2.1
Name: wc-onto
Version: 0.0.2
Summary: Ontology for whole-cell modeling
Home-page: https://github.com/KarrLab/wc_onto
Author: Karr Lab
Author-email: info@karrlab.org
License: MIT
Download-URL: https://github.com/KarrLab/wc_onto
Description: |Documentation| |Test results| |Test coverage| |Code analysis| |License|
        |Analytics|
        
        WC-Onto
        =======
        
        Ontology for whole-cell modeling
        
        Installation
        ------------
        
        Installing the ontology for use in Python
        ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
        
        1. Install this Python package with pip
        
           ::
        
               pip install git+https://github.com/KarrLab/wc_onto.git#egg=wc_onto[all]
        
           This command will install this Python package, including the ontology
           (in OBO format) and the Python code for using the ontology. Once
           installed, the ontology will be located at
           ``pkg_resources.resource_filename('wc_onto', 'onto.obo')``.
        
        2. Obtain a `BioPortal API key <http://bioportal.bioontology.org/>`__
        3. Save your BioPortal API key to a configuration file
           (``~/.wc/wc_onto.cfg``)
        
           ::
        
               [wc_onto]
                   [[bioportal]]
                       key = <BioPortal API key>
        
        4. Import the package. The other ontologies which wc\_onto references
           will automatically be downloaded the first time that the package is
           imported.
        
           ::
        
               from wc_onto import onto
        
        Downloading the ontology
        ~~~~~~~~~~~~~~~~~~~~~~~~
        
        Alternatively, the ontology can be downloaded (in OBO format) from
        GitHub or BioPortal
        
        -  Download `latest
           revision <https://raw.githubusercontent.com/KarrLab/wc_onto/master/wc_onto/onto.obo>`__
           from GitHub
        -  Download `latest
           snapshot <https://bioportal.bioontology.org/ontologies/WC>`__ from
           BioPortal
        
        Documentation
        -------------
        
        Please see the `API documentation <https://docs.karrlab.org/wc_onto>`__.
        
        License
        -------
        
        The package is released under the `MIT license <LICENSE>`__.
        
        Development team
        ----------------
        
        This package was developed by the `Karr Lab <https://www.karrlab.org>`__
        at the Icahn School of Medicine at Mount Sinai in New York, USA.
        
        Questions and comments
        ----------------------
        
        Please contact the `Karr Lab <https://www.karrlab.org>`__ with any
        questions or comments.
        
        .. |Documentation| image:: https://readthedocs.org/projects/wc-onto/badge/?version=latest
           :target: https://docs.karrlab.org/wc_onto
        .. |Test results| image:: https://circleci.com/gh/KarrLab/wc_onto.svg?style=shield
           :target: https://circleci.com/gh/KarrLab/wc_onto
        .. |Test coverage| image:: https://coveralls.io/repos/github/KarrLab/wc_onto/badge.svg
           :target: https://coveralls.io/github/KarrLab/wc_onto
        .. |Code analysis| image:: https://api.codeclimate.com/v1/badges/e7b017f281d0905620de/maintainability
           :target: https://codeclimate.com/github/KarrLab/wc_onto
        .. |License| image:: https://img.shields.io/github/license/KarrLab/wc_onto.svg
           :target: LICENSE
        .. |Analytics| image:: https://ga-beacon.appspot.com/UA-86759801-1/wc_onto/README.md?pixel
        
        
Keywords: whole-cell modeling single cell computational systems biology dynamical modeling bioinformatics ontology
Platform: UNKNOWN
Classifier: Development Status :: 3 - Alpha
Classifier: License :: OSI Approved :: MIT License
Classifier: Programming Language :: Python
Classifier: Intended Audience :: Science/Research
Classifier: Natural Language :: English
Classifier: Topic :: Scientific/Engineering :: Bio-Informatics
Provides-Extra: tests
Provides-Extra: docs
Provides-Extra: all
