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Tissue Simulation Toolkit, v0.1.3

0.1.3

Welcome to the Tissue Simulation Toolkit, a library for two-dimensional simulations of Glazier and Graner's Cellular Potts model (Glazier and Graner, 1993).

The TST aims to provide a simple set of computational tools to get you started with the Cellular Potts Model (CPM), also called Glazier-Graner-Hogeweg (GGH) model.

The current version of the TST includes example programs for the following published simulations:

The TST provides many recent extensions to the CPM, including

and visualization of:

Installation

The TST has been compiled on Windows XP (minGW), and Linux and MacOSX systems (GNU C++). The following libraries are required:

Qt (version 4.3) libpng (url) and libz (url)

For Unix, we also have an X11-only version, although compilation is easiest with the qmake tool shipped with Qt (see http://www.trolltech.com)

With Qt, simply type:

qmake make

If you want to use a different "main" program (examples are given: vessel.cpp and sorting.cpp), just change "TARGET" in the file "CellularPotts2.pro".

Programs

A small Cellular Potts tutorial making use of the example programs sorting.cpp and vessel.cpp is provided by the document "exercises.pdf" included in the source package.

Documentation

An automatically generated class documentation is included in html/index.html.

References


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