bio2bel-hgnc

Bio2BEL HGNC |build| |coverage| |documentation| |zenodo|

This package creates:

• HGNC BEL namespace
• HGNC gene families BEL namespace,
• HGNC gene family membership BEL Script
• orthology BEL script

Installation |pypi_version| |python_versions| |pypi_license|

bio2bel_hgnc can be installed easily from PyPI <https://pypi.python.org/pypi/bio2bel_hgnc>_ with the following code in your favorite terminal:

.. code-block:: sh

$ python3 -m pip install bio2bel_hgnc

or from the latest code on GitHub <https://github.com/bio2bel/hgnc>_ with:

.. code-block:: sh

$ python3 -m pip install git+https://github.com/bio2bel/hgnc.git@master

Setup

HGNC can be downloaded and populated from either the Python REPL or the automatically installed command line utility.

Python REPL

.. code-block:: python

    >>> import bio2bel_hgnc
    >>> hgnc_manager = bio2bel_hgnc.Manager()
    >>> hgnc_manager.populate()

Command Line Utility

.. code-block:: bash

bio2bel_hgnc populate

Citations

• Gray KA, et al. genenames.org: the HGNC resources in 2015 <http://www.ncbi.nlm.nih.gov/pubmed/25361968>_. Nucleic Acids Res. 2015 Jan;43(Database issue):D1079-85

Acknowledgements

• This package heavily relies on Andrej Konotopez's package PyHGNC <https://github.com/lekono/pyhgnc>_

.. |build| image:: https://travis-ci.org/bio2bel/hgnc.svg?branch=master :target: https://travis-ci.org/bio2bel/hgnc :alt: Build Status

.. |coverage| image:: https://codecov.io/gh/bio2bel/hgnc/coverage.svg?branch=master :target: https://codecov.io/gh/bio2bel/hgnc?branch=master :alt: Coverage Status

.. |documentation| image:: http://readthedocs.org/projects/bio2bel-hgnc/badge/?version=latest :target: http://bio2bel.readthedocs.io/projects/hgnc/en/latest/?badge=latest :alt: Documentation Status

.. |climate| image:: https://codeclimate.com/github/bio2bel/hgnc/badges/gpa.svg :target: https://codeclimate.com/github/bio2bel/hgnc :alt: Code Climate

.. |python_versions| image:: https://img.shields.io/pypi/pyversions/bio2bel_hgnc.svg :alt: Stable Supported Python Versions

.. |pypi_version| image:: https://img.shields.io/pypi/v/bio2bel_hgnc.svg :alt: Current version on PyPI

.. |pypi_license| image:: https://img.shields.io/pypi/l/bio2bel_hgnc.svg :alt: MIT License

.. |zenodo| image:: https://zenodo.org/badge/DOI/10.5281/zenodo.1162644.svg :target: https://doi.org/10.5281/zenodo.1162644