SQLAlchemy ORM and pydantic data models for SQL storage and JSON serialization of COBRA components such as reactions, compounds, and compartments.
Project description
Provide SQLAlchemy ORM and pydantic data models for SQL storage and serialization of COBRA components such as reactions, compounds, and compartments. They are loosely modeled after corresponding classes from the SBML Level 3 Version 2 specification. The data models are primarily intended for web services but other applications may benefit from these, too.
Install
It’s as simple as:
pip install cobra-component-modelsUsage
For now please take a look at the various class definitions and test cases to understand how to use the provided models.
Copyright
Copyright © 2019, Moritz E. Beber.
Copyright © 2018-2019, Institute for Molecular Systems Biology, ETH Zurich.
Copyright © 2018-2019, Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark.
Free software distributed under the Apache Software License 2.0.
Parts of the included codebase are licensed under the MIT license.
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