CompuCell3d manual and Tutorial Version 2
IX.2.15. MolecularContact
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- IX.2.15. ContactCompartment
IX.2.15. MolecularContactThis plugin is analogous to ContactLocalProduct and allows users to specify functional form of adhesion molecules interactions using Python syntax. It is in beta state and for this reason we are not discussing it in more detail and currently suggest to use Either AdhesionFlex or ContactLocal product plugins. IX.2.15. ContactCompartmentThis plugin is a generalization of the contact energy plugin for the case of compartmental cell models. 
where i and j denote pixels , denotes, as before, a cell type of a cell with cluster id and cell id. In compartmental cell models a cell is a collection of subcells. Each subcell has a unique id (cell id). In addition to that each subcell will have additional attribute, a cluster id that determines to which cluster of subcells a given subcell belongs. (think of a cluster as a cell with nonhomogenous cytoskeleton) The idea here is to have different contact energies between subcells belonging to the same cluster and different energies for cells belonging to different clusters. Technically subcells of a cluster are “regular” CompuCell3D cells. By giving them an extra attribute cluster id we can introduce a concept of compartmental cells. In our convention 0,0) denotes medium Introduction of cluster id and cell id are essential for the definition of  .
As you can see from above there are two hierarchies of contact energies – external and internal. The energies depend on cell types as in the case “regular” Contact plugin. Now, however, depending whether pixels for which we calculate contact energies belong to the same cluster or not we will use internal or external contact energies respectively. Directory: BinDoc -> cc3d binaries -> Manuals Manuals -> 111Equation Chapter 1 Section 1 CompuCell3d reference Manual Version 4 Download 6.67 Mb. Share with your friends:
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