compartor 1.1.1

Automatic moment equation generation for stochastic compartment populations

Compartor

Compartor is an automatic moment equation generator for stochastic compartment populations: From a set of provided interaction rules, it derives the associated system of ODEs that describes the population statistics. Equations can be exported as Python or Julia code.

Installation

Install with pip

pip install compartor

Getting started

A tutorial for the usage of Compartor is provided as Jupyter notebooks at https://github.com/zechnerlab/Compartor. (You can experiment with the notebooks on Binder first, without installing anything locally.)

Publications

Compartor is based on the theoretical framework introduced by

Duso, L. and Zechner, C. (2020). Stochastic reaction networks in dynamic compartment populations. Proceedings of the National Academy of Sciences, 117(37), 22674–22683 (https://doi.org/10.1073/pnas.2003734117).