2022 PhysiCell Hackathon and Workshop
PhysiCell is an open source, agent-based simulation framework for simulating complex multicellular systems. It simulates the chemical environment (diffusion of substrates and signaling factors), individual cell behaviors, and cell-cell interactions. It can be tailored to a broad variety of problems in cancer, infectious diseases, developmental biology, immunology, micro-ecosystems, and more.
The workshop is open to all without participation limits. The hackathon is closely mentored and will be open to a selected cohort of up to 30 participants. Applicants should have prior experience in C++ or Python, with an interest in multicellular modeling.
What you’ll learn:
- Build multiscale agent-based multicellular simulations in PhysiCell
- Integrate SBML network models in PhysiCell agents
- Share models online on nanoHUB
What you’ll do
- Attend morning sessions to learn PhysiCell
- Form a team in afternoon hackathon sessions to build a model or a tool
- Join and help drive the PhysiCell community as future leaders
Benefits and prizes for accepted hackathon participants!
- Direct mentoring by experienced modelers
- PhysiCell swag mailed ot your home (upon request)
- Awards for the best model and best tool
Agenda and Materials
The full agenda and materials--including setup guides--are here.
- Try PhysiCell models online on nanoHUB (these may be useful for education!)
- Learn to build and explore PhysiCell models
- Form a new team and build one of:
- A PhysiCell model of a multicellular system. Examples could include clonal expansion and competition in colorectal carcinoma, immunotherapy, nanotherapy, angiogenesis, or something completely new by your team!
- A PhysiCell tool that helps the community. Examples could include improved Python 3D visualization, new tools to configure models, an extension to link dynamic flux balance models, calibration tools, a plugin for reinforcement learning, or something completely new!
- Make new connections across the cancer modeling community
- Identify new leaders in the PhysiCell community
Other workshops of interest
We coordinated with other workshops to prevent overlapping schedules. You may be interested in:
- Herbert Sauro’s Network Modeling Virtual Summer School and Hackathon
- July 18-24
- Learn to build network models in Python, such as metabolism and signaling.
- James Glazier’s CompuCell3D Workshop and Hackathon
- August 1-7
- Learn to build multiscale, multicellular models in CompuCell3D