Exact Hybrid Particle/Population Simulation of Rule-Based Models of Biochemical Systems

doi:10.1371/journal.pcbi.1003544

Exact Hybrid Particle/Population Simulation of Rule-Based Models of Biochemical Systems

Figure 9

HPP performance analyses for various lumping thresholds at cell fraction .

(A) TLBR; (B) Actin; (C) ; (D) EGFR. In all plots, threshold values for different lumping sets are shown on the x-axis. For TLBR and Actin, some thresholds yield the same set of population species as larger thresholds and are thus omitted from the figures. For TLBR, results for thresholds are omitted due to impractically large partial networks in those cases. Results for NFsim (‘NF’) and the hand-picked lumping sets from Figs. 5–8 (‘HPP’) are shown in all plots for comparison. Error bars show standard error (three samples).

doi: https://doi.org/10.1371/journal.pcbi.1003544.g009