Software
Supplementary Material for Publications

This page contains material related to the paper:
"O.Wolkenhauer, M.Ullah, W.Kolch and K.-H.Cho: Modellling and Simulation of IntraCellular Dynamics: Choosing an Appropriate Framework"

Matlab-files (developed in Matlab 6.5)

(These files are fully commented)

• reactiondata.m (sets parameters for simulations)
• gillespie.m (function to implement gillespie algorithm)
• gma.m (function to implement law of mass action)
• stochgma.m (function that implements Gillespie algorithm and GMA)
• illu_a.m (script file to illustrate dependence of a_\mu on initial number of molecules)
• illu_std.m (script file to illustrate variability as a function of the initial number of molecules)
• illu_sim.m (script file to compare solutions of the GMA with stochastic simulations)
• preprint.m (function to prepare the figures for nice printing)
• matfactorial.m (matrix version of factorial)
• matnchoosek.m (matrix version of nchoosek)