PhysiCell learning by examples

Demonstrate PhysiCell modeling via sample models

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Version 2.4 - published on 14 Apr 2023

doi:10.21981/035M-Q492 cite this

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    biorobots cells biorobots director signal

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Abstract

This app allows the selection of one of multiple sample projects that are included in the PhysiCell modeling framework.

  • Use the "Model" menu at the top to select a model (biorobots is the default)
  • Select the "Run" tab and "Run Simulation" button ("Cancel" before it stops if you just want to see brief, early results)
  • Select the "Plot" tab and "Play" the simulation results
  • Begin experimenting with changing various parameters of each model. Note that the "Cell Types" tab has sub-tabs for the various aspects of a cell type phenotype.
  • See the Virtual Course notes at https://github.com/physicell-training/ws2021 

Publications

Ghaffarizadeh A, Heiland R, Friedman SH, Mumenthaler SM, Macklin P (2018) PhysiCell: An open source physics-based cell simulator for 3-D multicellular systems. PLoS Comput Biol 14(2): e1005991. https://doi.org/10.1371/journal.pcbi.1005991

Cite this work

Researchers should cite this work as follows:

  • Randy Heiland, Paul Macklin (2023), "PhysiCell learning by examples," https://nanohub.org/resources/pc4learning. (DOI: 10.21981/035M-Q492).

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Tags

  1. nanoBIO tools
  2. PhysiCell