HSimulator: Hybrid Stochastic/Deterministic Simulation of Biochemical Reaction Networks

Table 1

Simulation parameters used for the benchmarks of the compared tools.

Algorithm	Software	Parameters
DM	HSimulator	No parameters needed
DM	COPASI	No parameters needed
RSSA	HSimulator
LSODA	COPASI	Relative and absolute thresholds:
RK45	HSimulator	Initial stepsize:
		Error threshold:
Hybrid Runge-Kutta	COPASI	Maximum number of reactant molecules for slow reactions: 100
		RK4 stepsize:
HRSSA	HSimulator	; ; ;