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A Discretized Overlap Resolution Algorithm (DORA) for resolving spatial overlaps in individual-based models of microbes

Fig 4

Simulation of colony growth at a high nutrient concentration of , with overlap resolution managed by the DORA algorithm.

(A) Shows snapshots of the simulation at various time points, ending with a final population of cells, and includes a close-up of the final colony illustrating DORA’s effective overlap resolution; however, some minor residual overlaps remain, which are highlighted by rectangles. (B) Depicts the evolution of the resolution time step (in blue) and the cell population growth (in red) over the course of the experiment using the DORA algorithm. (C) Depicts the same relationship as (b) but with the overlap resolution occurring via the kd-tree approach for comparison. (D) Displays the progression of the overlap ratio during the simulation using the DORA algorithm. For all the plots, a line represents the mean of the results across 30 simulations while the thickness of a line represents the standard deviation.

doi: https://doi.org/10.1371/journal.pcbi.1012974.g004