This tutorial serves as an introduction to modeling a dynamical system using ordinary differential equations (ODEs).
Click the Binder link below to open the enclosed Jupyter Notebook on Binder. Then open one of the Jupyter Notebook files on Binder for further instructions.
Two versions of the model are included: a direct ODE representation using SciPy, and a reaction "rule-based" representation using PySB.
- Zombie Apocalypse example by Munz et al. 2009
- SciPy implementation by Christopher Campo
- Jupyter Notebook interactivity and PySB conversion by Alex Lubbock