Additional file 5.
Simulation setup file for the diffusion-between-obstacles examples. Brownmove simulation setup file for a 2D periodic box with two oppositely placed constant density interfaces and an array of obstacles as sketched in Figure 9. The constant density interfaces and the obstacles are defined in "boxWithObstacles.bdef" which is given as additional file 6, while the mobile particles are defined in "simpleBead.bdef" (see additional file 7). For more details see the comments in the setup file.
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Geyer BMC Biophysics 2011 4:7 doi:10.1186/2046-1682-4-7