AESS: Accelerated Exact Stochastic Simulation

Published: 1 December 2011| Version 1 | DOI: 10.17632/n3s9f96jwp.1
David D. Jenkins, Gregory D. Peterson


Abstract The Stochastic Simulation Algorithm (SSA) developed by Gillespie provides a powerful mechanism for exploring the behavior of chemical systems with small species populations or with important noise contributions. Gene circuit simulations for systems biology commonly employ the SSA method, as do ecological applications. This algorithm tends to be computationally expensive, so researchers seek an efficient implementation of SSA. In this program package, the Accelerated Exact Stochastic Simulatio... Title of program: AESS Catalogue Id: AEJW_v1_0 Nature of problem Simulation of chemical systems, particularly with low species populations, can be accurately performed using Gillespie's method of stochastic simulation. Numerous variations on the original stochastic simulation algorithm have been developed, including approaches that produce results with statistics that exactly match the chemical master equation (CME) as well as other approaches that approximate the CME. Versions of this program held in the CPC repository in Mendeley Data AEJW_v1_0; AESS; 10.1016/j.cpc.2011.07.013 This program has been imported from the CPC Program Library held at Queen's University Belfast (1969-2018)



Molecular Biology, Physical Chemistry, Molecular Physics, Biological Sciences, Computational Physics