CelleratorNetwork

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Description

Needs["Cellzilla2D`"];

Return Value

CelleratorNetwork[network, betas, tissue]
returns a cellerator reaction network expanded to a cellular template.

network is any cellerator network, e.g., the input to xlr8r's interpret function. The entire set of reactions is assumed to occur in every cell in the template. Reactions are "expanded" to the network by adding indices, e.g., a reaction such as A→B becomes {A[1]→B[1], A[2]→B[2], ...} etc

betas={{X,βx}, {Y,βY}, ...} - is a list of species/penetrability pairs for each species that is assumed to diffuse between cells.

Each pair {X, βX} represents a species name followed by a penetrability coefficient.

Penetrabilities are converted to diffusion rates by accounting for the areas of the cells and the relative length of the connections. The resulting differential equation for xpecies X_i in cell i with area A_iis

which in turn is represented by a set of Cellerator reactions

Any of the pairs {X, βX} can instead be expressed as a triplet {X, βX, fX}, where fX is the head of a function of two indices fx[i,j] in which case

The triplet format allows one to specify different penetrabilities in different regions of the tissue defined by cell number.

tissue is any Cellzilla2D tissue object.

Options

Example

[ Download Example as Zipped Mathematica Notebook ]

Implementation Notes

See Also