Welcome to CompuCell3D

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.

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”.

Compucell3D is led by Anwar Shaikh (IU), Maciej Swat (IU) and James Glazier (IU) in collabration with Dr. David Umulis (PU) and team.


Want to contribute to CompuCell3D developement?

We highly encourage fellow researchers to contribute to CompuCell3D code. If you have developed some useful plugin or fuctionality on CompuCell3D and would like share it with rest of us. Please commit the code and open a pull request on CompuCell3D GitHub repository. We would love to see it in next version of CompuCell3D.


Try our new CompuCell3D User Forum. In case you are facing any issue with CompuCell3D installation, we are here to help. Please contact- anshaikh@iu.edu . Problem is often simple to solve, can be resovled in no time.

CompuCell3D User Forum


Latest News

***NEW*** CC3D Version 3.7.7

We have just released CompuCell3D 3.7.7. Check out our Download page and release notes For your convenience we developed online version of Python Scripting Manual. Make sure to check a tutorial on how to use our new plotting back-end.

How to cite CompuCell3D

Multi-Scale Modeling of Tissues Using CompuCell3DM. Swat, Gilberto L. Thomas, Julio M. Belmonte, A. Shirinifard, D.Hmeljak, J. A. Glazier, Computational Methods in Cell Biology, Methods in Cell Biology 110: 325-366 (2012)


New Papers using CompuCell Simulations have been published:


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FrontPage (last edited 2018-01-23 18:55:28 by anwar)