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Cantera is a suite of object-oriented software tools for problems involving chemical kinetics, thermodynamics, and/or transport processes. It can be used from MATLAB, Python, C++, or Fortran.
Lattice simulation of biochemical reactions and diffusion
This site hosts code investigating the role of spatial heterogeneity in biochemical signaling. Motivated by several biological examples, we study the behavior of covalent modification networks when the activating component is localized to a planar membrane in either a random or clustered configuration. Reactions and diffusion are implemented on a three-dimensional lattice.
A collection of Matlab functions and scripts for computing the saliency map for an image, for determining the extent of a proto-object, and for serially scanning the image with the focus of attention.