https://github.com/bio2bel/bio2bel
A Python framework for integrating biological databases and structured data sources in Biological Expression Language (BEL)
https://github.com/bio2bel/bio2bel
biological-expression-language data-integration ontologies
Last synced: 29 days ago
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A Python framework for integrating biological databases and structured data sources in Biological Expression Language (BEL)
- Host: GitHub
- URL: https://github.com/bio2bel/bio2bel
- Owner: bio2bel
- License: mit
- Created: 2017-08-09T11:21:36.000Z (over 8 years ago)
- Default Branch: master
- Last Pushed: 2021-11-03T19:14:38.000Z (over 4 years ago)
- Last Synced: 2026-01-03T13:38:39.308Z (about 2 months ago)
- Topics: biological-expression-language, data-integration, ontologies
- Language: Python
- Homepage: http://bio2bel.rtfd.io
- Size: 417 KB
- Stars: 21
- Watchers: 2
- Forks: 5
- Open Issues: 22
-
Metadata Files:
- Readme: README.rst
- Changelog: CHANGELOG.rst
- License: LICENSE
Awesome Lists containing this project
README
Bio2BEL |build| |coverage| |docs| |zenodo|
==========================================
Bio2BEL is a project aimed at bringing biological databases and other structured knowledge sources in a wide variety
of schemata into the unified framework of the
`Biological Expression Language `_ [1]_.
Two important places to look:
- `How to make a Bio2BEL Repository `_
- `How to use the CLI `_
Installation |pypi_version| |python_versions| |pypi_license|
------------------------------------------------------------
Download the latest stable code from `PyPI `_ with:
.. code-block:: sh
$ python -m pip install bio2bel
or get the latest from GitHub with:
.. code-block:: sh
$ git clone https://github.com/bio2bel/bio2bel.git
$ cd bio2bel
$ python -m pip install -e .
or check the `installation instructions `_.
Citation
--------
If you find Bio2BEL useful for your work, please consider citing:
.. [1] Hoyt, C. T., *et al.* (2019). `Integration of Structured Biological Data Sources using Biological Expression Language
`_. *bioRxiv*, 631812.
.. |build| image:: https://travis-ci.com/bio2bel/bio2bel.svg?branch=master
:target: https://travis-ci.com/bio2bel/bio2bel
:alt: Build Status
.. |coverage| image:: https://codecov.io/gh/bio2bel/bio2bel/coverage.svg?branch=master
:target: https://codecov.io/gh/bio2bel/bio2bel?branch=master
:alt: Coverage Status
.. |docs| image:: http://readthedocs.org/projects/bio2bel/badge/?version=latest
:target: http://bio2bel.readthedocs.io/en/latest/?badge=latest
:alt: Documentation Status
.. |python_versions| image:: https://img.shields.io/pypi/pyversions/bio2bel.svg
:alt: Stable Supported Python Versions
.. |pypi_version| image:: https://img.shields.io/pypi/v/bio2bel.svg
:alt: Current version on PyPI
.. |pypi_license| image:: https://img.shields.io/pypi/l/bio2bel.svg
:alt: MIT License
.. |zenodo| image:: https://zenodo.org/badge/99800349.svg
:target: https://zenodo.org/badge/latestdoi/99800349