cellzilla Reference Home

cellzilla is an xCellerator compatible package designed to meet the specific requirements of multicellular modeling by the Computable Plant project. Although it is bundled with the xCellerator distribution it is a work in progress and is subject to change.


The remainder of this page is badly outdated. See the example file at: http://wwww.xlr8r.info/cellzilla/example/


A summary of some current cellzilla functionality is given in the following paragraphs.

animate displays the results of a two-dimensional simulation (the output of run) as a movie. The color of each cell corresponds to the value of a specified variable in the simulation. The movie is produced by a sequence of calls to animate based on interpolated data at different times in the solution.

createNetwork generates a list of xCellerator reactions for an array of cells, given an internalNetwork (which describes the reactions within each cell), an interaction network, (which describes the reactions between cells) and a connection list. The output is optionally either the input to interpret or the output from interpret.

exportToAmira generates a two or three-dimensional Amira compatible data file.

exportToQhull generates a Qhull input file based on a list of {x, y} or {x,y,z} coordinates

Various regular arrays of cells with random offsets can be generated by circularGrid, semiCircularGrid, rectGrid.

readDelaunay reads a Delaunay triangulation file produced by qhull.

toConnectionMatrix converts a list of {i,j} connections into a connection matrix.

toLinkedList converts a connection matrix into a list of {i, j} connections.

visualize displays a two dimensional array of cells whose coordinates are given as a list of {x, y} values.







[This page was last revised on: 22 July 2005]