CompuCell3D - 2D wet foam coarsening with drainage

Simulation of 2D wet foam with drainage (gravity)

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Version 1.1 - published on 31 Jul 2020

doi:10.21981/QFJT-ST68 cite this

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CompuCell3D Demo for a 2D foam coarsening with drainage (gravity).


This simulations seeds space with cells representing air bubbles, they are allowed to relax to their target volume with no other cell type present.

On time step 200 the simulation's empty space is filled with cells representing water. The whole system is allowed to relax for another 100 time steps then air bubbles have their volume constrain removed, i.e. can freely change their volumes. On time step 500 gravity (drainage) is turned on and water cells accumulate at the bottom of the simulation.


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CompuCell3D is a flexible scriptable modeling environment, which allows the rapid construction of sharable Virtual Tissue in-silico simulations of a wide variety of multi-scale, multi-cellular problems including angiogenesis, bacterial colonies, cancer, developmental biology, evolution, the immune system, tissue engineering, toxicology and even non-cellular soft materials. CompuCell3D models have been used to solve basic biological problems, to develop medical therapies, to assess modes of action of toxicants and to design engineered tissues. CompuCell3D intuitive and make Virtual Tissue modeling accessible to users without extensive software development or programming experience. It uses Cellular Potts Model to model cell behavior.


Compucell3D is led by Maciej Swat (IU), Andy Somogyi (IU), Juliano Gianlupi (IU), and James Glazier (IU) in collabration with Dr. David Umulis (PU) and team.

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This project is currently funded by generous support from the U.S. National Science Foundation (NSF) and National Institutes of Health (NIH). Grants: NSF- 1720625, “Network for Computational Nanotechnology - Engineered nanoBIO Node” and NIH- R01 GM122424, “Competitive Renewal of Development and Improvement of the Tissue Simulation Toolkit”.

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Researchers should cite this work as follows:

  • (2020), "CompuCell3D - 2D wet foam coarsening with drainage," (DOI: 10.21981/QFJT-ST68).

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