python_scripting_manual
3.7.9
Introduction
How to use Python in CompuCell3D
SteppableBasePy class
Adding Steppable to Simulation using Twedit++
Passing information between steppables
Creating and Deleting Cells. Cell Type Names
Calculating distances in CC3D simulations.
Looping over select cell types. Finding cell in the inventory.
Writing data files in the simulation output directory.
Adding plots to the simulation
Custom Cell Attributes in Python
Adding and managing extra fields for visualization purposes
Automatic Tracking of Cells’ Attributes
Field Secretion
Chemotaxis on a cell-by-cell basis
Steering – changing CC3DML parameters on-the-fly.
Steering – changing Python parameters using Graphical User Interface.
Replacing CC3DML with equivalent Python syntax
Cell Motility. Applying force to cells.
Setting cell membrane fluctuation ona cell-by-cell basis
Modifying attributes of CellG object
Controling steppable call frequency. Stopping simulation on demand or increasing maximum Monte Carlo Step.
Building a wall (it is going to be terrific. Believe me)
Resizing the lattice
Changing number of Worknodes
Iterating over cell neighbors
Mitosis
Dividing Clusters (aka compartmental cells)
Changing cluster id of a cell.
SBML Solver
Building SBML models using Tellurium
Configuring Multiple Screenshots
Parameter Scans
Restarting Simulations
Implementing Energy Functions in Python
Appendix A
Appendix B
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