Metadata-Version: 2.1
Name: metabolike
Version: 0.3.2
Summary: Build graph database from BRENDA and BioCyc for studying reprogrammed metabolisms.
Keywords: bioinformatics,metabolic-pathway,network,graph-database
Author-email: Yi Zhou <metabolike@y1zhou.com>
Requires-Python: >=3.6,<4
Description-Content-Type: text/x-rst
Classifier: License :: OSI Approved :: GNU General Public License v3 or later (GPLv3+)
Classifier: Development Status :: 2 - Pre-Alpha
Classifier: Programming Language :: Python :: 3
Classifier: Framework :: FastAPI
Classifier: Framework :: Pytest
Classifier: Framework :: Sphinx
Classifier: Intended Audience :: Science/Research
Classifier: Topic :: Scientific/Engineering :: Bio-Informatics
Classifier: Typing :: Typed
Requires-Dist: lark>=0.11.3,<1.0.0
Requires-Dist: pandas
Requires-Dist: pyarrow
Requires-Dist: numpy
Requires-Dist: python-libsbml>=5.19.2
Requires-Dist: neo4j>=4.0.0
Requires-Dist: tqdm
Requires-Dist: pyyaml
Requires-Dist: typer>=0.4.0,<0.5.0
Requires-Dist: fastapi>=0.70.0,<0.71.0
Requires-Dist: uvicorn>=0.16.0,<0.17.0
Requires-Dist: black ; extra == "dev"
Requires-Dist: sphinx ; extra == "doc"
Requires-Dist: sphinx_rtd_theme ; extra == "doc"
Requires-Dist: sphinx-autodoc-typehints ; extra == "doc"
Requires-Dist: pytest ; extra == "test"
Project-URL: Documentation, https://metabolike.readthedocs.io/
Project-URL: Source, https://github.com/y1zhou/metabolike
Provides-Extra: dev
Provides-Extra: doc
Provides-Extra: test

Metabolic reprogramming Knowledgebase
=====================================

.. image:: https://img.shields.io/pypi/v/metabolike
    :alt: PyPI Release
    :target: https://pypi.org/project/metabolike/
.. image:: https://img.shields.io/github/workflow/status/y1zhou/metabolike/Release%20to%20PyPI
    :alt: Release Build Status
    :target: https://github.com/y1zhou/metabolike/actions/workflows/release.yml
.. image:: https://img.shields.io/github/workflow/status/y1zhou/metabolike/PyTest?label=test
    :alt: PyTest Workflow Status
    :target: https://github.com/y1zhou/metabolike/actions/workflows/pytest.yml

A Python package that aggregates the data from BRENDA_ and BioCyc_ into one unified `graph database`_.
The MetaCyc (BioCyc) database is imported to a graph database using the provided SBML file and various ``.dat`` files.

.. _BRENDA: https://brenda-enzymes.org/
.. _BioCyc: https://biocyc.org/
.. _graph database: https://neo4j.com/

To-Do
-----

* Add tutorial for the package
* Add documentation to the CLI
* Add Dockerfile and docker-compose file
* Add tests

