jaxkineticmodel 0.0.4

A tool for building, training, and simulating metabolic kinetic models in Jax/Diffrax

JaxKineticModel

Python package to simulate, build, and train kinetic models.

Installation

git clone https://github.com/AbeelLab/jaxkineticmodel.git
python -m pip install .

Documentation package

Documentation on jaxkineticmodel can be found here

Running experiments as reported in paper

• Datasets generated from SBML models can be found in datasets
• Glucose pulse datasets can be found here
• Experiments as reported in [1] can be found in scripts. Results from these experiments can found in the 4tu-repository

Source code

All data, source code, scripts, and results can be found in the 4tu-repository

Reference

If you use this package in your work, please reference:

[1] Lent, P. V., Bunkova, O., Planken, L., Schmitz, J., & Abeel, T. (2024). Neural Ordinary Differential Equations Inspired Parameterization of Kinetic Models. bioRxiv, 2024-12.