https://github.com/bio2bel/go
A Bio2BEL package for converting the Gene Ontology (GO) to BEL
https://github.com/bio2bel/go
biological-expression-language gene-ontology networks-biology ontology pathways systems-biology terminology
Last synced: 4 months ago
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A Bio2BEL package for converting the Gene Ontology (GO) to BEL
- Host: GitHub
- URL: https://github.com/bio2bel/go
- Owner: bio2bel
- License: mit
- Created: 2017-08-10T16:41:15.000Z (almost 9 years ago)
- Default Branch: master
- Last Pushed: 2020-03-28T23:23:54.000Z (about 6 years ago)
- Last Synced: 2025-12-28T21:04:28.041Z (5 months ago)
- Topics: biological-expression-language, gene-ontology, networks-biology, ontology, pathways, systems-biology, terminology
- Language: Python
- Homepage:
- Size: 65.4 KB
- Stars: 1
- Watchers: 1
- Forks: 0
- Open Issues: 1
-
Metadata Files:
- Readme: README.rst
- License: LICENSE
Awesome Lists containing this project
README
Bio2BEL GO |build| |coverage| |documentation| |zenodo|
======================================================
Converts the Gene Ontology (GO) to BEL
Installation |pypi_version| |python_versions| |pypi_license|
------------------------------------------------------------
``bio2bel_go`` can be installed easily from `PyPI `_ with
the following code in your favorite terminal:
.. code-block:: sh
$ python3 -m pip install bio2bel_go
or from the latest code on `GitHub `_ with:
.. code-block:: sh
$ python3 -m pip install git+https://github.com/bio2bel/go.git@master
Setup
-----
GO can be downloaded and populated from either the Python REPL or the automatically installed command line
utility.
Python REPL
~~~~~~~~~~~
.. code-block:: python
>>> import bio2bel_go
>>> go_manager = bio2bel_go.Manager()
>>> go_manager.populate()
Command Line Utility
~~~~~~~~~~~~~~~~~~~~
.. code-block:: bash
bio2bel_go populate
Citation
--------
- Ashburner, M., *et al.* (2000). `Gene ontology: tool for the unification of biology `_.
The Gene Ontology Consortium. Nature Genetics, 25(1), 25–9.
Links
-----
- http://geneontology.org/page/ontology-documentation
.. |build| image:: https://travis-ci.org/bio2bel/go.svg?branch=master
:target: https://travis-ci.org/bio2bel/go
:alt: Build Status
.. |documentation| image:: http://readthedocs.org/projects/bio2bel-go/badge/?version=latest
:target: http://bio2bel.readthedocs.io/projects/go/en/latest/?badge=latest
:alt: Documentation Status
.. |pypi_version| image:: https://img.shields.io/pypi/v/bio2bel_go.svg
:alt: Current version on PyPI
.. |coverage| image:: https://codecov.io/gh/bio2bel/go/coverage.svg?branch=master
:target: https://codecov.io/gh/bio2bel/go?branch=master
:alt: Coverage Status
.. |climate| image:: https://codeclimate.com/github/bio2bel/go/badges/gpa.svg
:target: https://codeclimate.com/github/bio2bel/go
:alt: Code Climate
.. |python_versions| image:: https://img.shields.io/pypi/pyversions/bio2bel_go.svg
:alt: Stable Supported Python Versions
.. |pypi_license| image:: https://img.shields.io/pypi/l/bio2bel_go.svg
:alt: MIT License
.. |zenodo| image:: https://zenodo.org/badge/99944678.svg
:target: https://zenodo.org/badge/latestdoi/99944678