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A package for parsing and storing the ExPASy Enzyme Database

Project description

This repository downloads and parses the enzyme classes from the ExPASy ENZYME database

Installation Current version on PyPI Stable Supported Python Versions Apache 2.0 License

bio2bel_expasy can be installed easily from PyPI with the following code in your favorite terminal:

$ python3 -m pip install bio2bel_expasy

or from the latest code on GitHub with:

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

or check the installation instructions.

Setup

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

Python REPL

>>> import bio2bel_expasy
>>> expasy_manager = bio2bel_expasy.Manager()
>>> expasy_manager.populate()

Command Line Utility

bio2bel_expasy populate

Programmatic Interface

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)

Citations

Gasteiger, E., et al. (2003). ExPASy: The proteomics server for in-depth protein knowledge and analysis. Nucleic Acids Research, 31(13), 3784–8.

Project details


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Filename, size & hash SHA256 hash help File type Python version Upload date
bio2bel_expasy-0.2.0-py3-none-any.whl (15.6 kB) Copy SHA256 hash SHA256 Wheel py3
bio2bel_expasy-0.2.0.tar.gz (20.4 kB) Copy SHA256 hash SHA256 Source None

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