This repository downloads and parses the enzyme classes from the ExPASy ENZYME database
bio2bel_expasy
can be installed easily from PyPI <https://pypi.python.org/pypi/bio2bel_expasy>
_ with the
following code in your favorite terminal:
.. code-block:: sh
$ python3 -m pip install bio2bel_expasy
or from the latest code on GitHub <https://github.com/bio2bel/expasy>
_ with:
.. code-block:: sh
$ python3 -m pip install git+https://github.com/bio2bel/expasy.git@master
or check the installation instructions <http://bio2bel.readthedocs.io/projects/expasy/en/latest/#installation>
_.
ExPASy can be downloaded and populated from either the Python REPL or the automatically installed command line utility.
Python REPL
.. code-block:: python
>>> import bio2bel_expasy
>>> expasy_manager = bio2bel_expasy.Manager()
>>> expasy_manager.populate()
Command Line Utility
.. code-block:: bash
bio2bel_expasy populate
To enrich the proteins in a BEL Graph with their enzyme classes, use:
from bio2bel_expasy import enrich_proteins graph = ... # get a BEL graph enrich_proteins(graph)
Gasteiger, E., et al. (2003). ExPASy: The proteomics server for in-depth protein knowledge and analysis <http://www.ncbi.nlm.nih.gov/pubmed/12824418>
_. Nucleic Acids Research, 31(13), 3784–8.
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.. |pypi_license| image:: https://img.shields.io/pypi/l/bio2bel_expasy.svg :alt: Apache 2.0 License
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