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CellModeller

CellModeller is a Python-based framework for modelling large-scale multi-cellular systems, such as biofilms, plant and animal tissue. We have developed models of cellular biophysics, gene regulation and other intracellular processes, and intercellular signalling. The idea of CellModeller is to create a system to simulate these models in populations of growing and dividing cells.

CellModeller is based largely on the PhD work of Tim Rudge and PJ Steiner. If you use it please consider citing the following publications:

• Computational modeling of synthetic microbial biofilms, TJ Rudge, PJ Steiner, A Phillips, J Haseloff, ACS synthetic biology 1 (8), 345-352 (PDF)

• Cell polarity-driven instability generates self-organized, fractal patterning of cell layers, TJ Rudge, F Federici, PJ Steiner, A Kan, J Haseloff, ACS synthetic biology 2 (12), 705-714 (PDF)