We have developed a number of computer programs as investigative tools to study bacterial chemotaxis. These include the dedicated, deterministic simulator BCT and two general-purpose, stochastic programs, StochSim and Smoldyn. The two stochastic programs are particle- rather than concentration-based, but differ in that Smoldyn has explicit 3-D spatial representation and incorporates diffusion, while StochSim only allows particles to interact spatially within a virtual 2-D array and does not feature diffusion.
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