Fig. 5: Parallelisation by FaST improves runtimes of agent-based model simulations of apoptosis execution. | npj Systems Biology and Applications

Fig. 5: Parallelisation by FaST improves runtimes of agent-based model simulations of apoptosis execution.

From: The FLAME-accelerated signalling tool (FaST) for facile parallelisation of flexible agent-based models of cell signalling

Fig. 5

The apoptosis execution model was run using MCell on CPU serial, FaST on CPU serial, FaST on parallel CPU or FaST on parallel GPU architecture and simulation runtimes were compared (a). Data represents mean and individual data points from three independent simulations. Dashed line indicates the runtime of the MCell simulation as a benchmark for FaST performance. All simulations were for 30 min, the time step Δt for particle diffusion was 0.0001 s and for reactions was 0.05 s in all FaST simulations. The time step used for MCell was 0.001 s, longer time points produced inherent errors. Asterisks (****) indicates P < 0.0001 from comparing FaST simulation runtimes against MCell. Significance was tested using one-way ANOVA with Dunnett’s correction.

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