A simplified python interface to COPASI.

python utilities for porous media analysis and visualization

python Circos

Example notebooks of pyCircos

a module template for drug treatment in PhysiCell

MD DaVis: A python package to analyze molecular dynamics trajectories of proteins

A collection of mathematical models with experimental data in the PEtab format as benchmark problems in order to evaluate new and existing methodologies for data-based modelling

PEtab --> COPASI importer

Pythonic scripting interface for Comsol Multiphysics

A python module for scientific analysis of 3D data based on VTK and Numpy

ilastik-shell, applets, and workflows to string them together.

Image processing scripts written to analyze physiology and nanoparticle delivery to micro metastases. Published by Kingston et al. in "Evaluating micrometastases as a target for nanoparticles using…

https://www.youtube.com/channel/UC34rW-HtPJulxr5wp2Xa04w?sub_confirmation=1