ChemCell WWW Site

Other Codes

These are other biological cell simulators, which may be well-suited to the problems you want to model.

The first 3 are similar in spirit to ChemCell, meaning they model biochemical networks of reacting/diffusing chemical species within a spatial geometry via particles. VCell uses continuum PDEs for reaction/diffusion in a spatial representation of the cell. E-Cell provides a rich set of continuum and stochastic solvers for non-spatial cell models.

Visualization Packages

ChemCell itself does not perform visualization of its output. Since its output is snapshots of particles, these are high-quality particle visualizers we recommend.

Our group has also written and released a separate toolkit called which provides tools for doing ChemCell pre- and post-processing, including model creation, plotting, and visualization. is written in Python, is available for download from this page.