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. Below is a preview of what CC3D can do:
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.
New CC3D forum
To report any bugs, or to ask questions, please visit our Q&A page: Reddit_CompuCell3D.
Note: In April 2019 our old user forum at CC3D - AllAnswered was discontinued. We are in the process of migrating the old content to the new Reddit forum.
CompuCell3D 14th User Training Workshop
August 11th - August 17th, 2019, Bloomington Indiana USA
We are pleased to announce our 14th Annual User training workshop. Please check links below for more information
Applications due June 20th, 2019
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.
Have CompuCell3D-related Question?
Try our new CompuCell3D User Forum. In case you are facing any issue with CompuCell3D installation, we are here to help. Please contact- email@example.com . Problem is often simple to solve, can be resovled in no time.
***NEW*** CC3D Version 3.7.8
We have just uploaded CompuCell3D 3.7.8. 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.
13th User Traning Workshop for CompuCell3D 2018
August 5th - August 11th at Indiana University, Bloomington, IN, USA. See more..
How to cite CompuCell3D
Multi-Scale Modeling of Tissues Using CompuCell3D – M. 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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