PDEparams: Parameter fitting toolbox for partial differential equations in Python

Motivation Partial differential equations (PDEs) is a well-established and powerful tool to simulate multi-cellular biological systems. However, available free tools for validation against data are not established. The PDEparams module provides flexible functionality in Python for parameter estimation in PDE models. Results The PDEparams module provides a flexible interface and readily accommodates different parameter analysis tools in PDE models such as computation of likelihood profiles, and parametric boot-strapping, along with direct visualisation of the results. To our knowledge, it is the first open, freely available tool for parameter fitting of PDE models. Availability and implementation The PDEparams module is distributed under the MIT license. The source code, usage instructions and step-by-step examples are freely available on GitHub at github.com/systemsmedicine/PDE_params . Contact [email protected]