Exact Hybrid Particle/Population Simulation of Rule-Based Models of Biochemical Systems
Figure 5
HPP performance analysis for the TLBR model.
(A) peak memory usage (left: absolute, right: relative to NFsim); (B) CPU run time (left: absolute, right: relative to NFsim); (C) number of reaction events fired during a simulation (); (D) equilibrium distribution of number of clusters (
). The slight deviation from linearity for ‘NF’ in (A) is an artifact of how memory is allocated in NFsim.