Accuracy limitations and the measurement of errors in the stochastic simulation of chemically reacting systems

DOI10.1016/J.JCP.2005.06.012MaRDI QIDQ2576282zbMATH OpenOpenAlexFDO

Authors Yang Cao, Linda Petzold

Publication date 27 December 2005

Published in Journal of Computational Physics (Search for Journal in Brave)

Full work available at URL https://doi.org/10.1016/j.jcp.2005.06.012

zbMATH Keywords

Monte Carlo simulationKolmogorov distancechemically reacting system\(\tau\)-leaping methodhistogram distance

Mathematics Subject Classification ID

Monte Carlo methods (65C05) Computational methods for stochastic equations (aspects of stochastic analysis) (60H35) Chemically reacting flows (80A32)

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Cites work

• scientific article; zbMATH DE number 52118 (Why is no real title available?)
• scientific article; zbMATH DE number 3241743 (Why is no real title available?)
• scientific article; zbMATH DE number 3107305 (Why is no real title available?)
• Confidence Limits for an Unknown Distribution Function
• Consistency and Stability of Tau-Leaping Schemes for Chemical Reaction Systems
• Convergence Rates for Markov Chains
• Table for Estimating the Goodness of Fit of Empirical Distributions
• The $\chi^2$ Test of Goodness of Fit
• The Kolmogorov-Smirnov, Cramer-von Mises Tests

Cited in

(13)

• \(S\)-leaping: an adaptive, accelerated stochastic simulation algorithm, bridging \(\tau\)-leaping and \(R\)-leaping
• Hybrid stochastic simulations of intracellular reaction-diffusion systems
• Optimal explicit stabilized postprocessed \(\tau\)-leap method for the simulation of chemical kinetics
• Automated deep abstractions for stochastic chemical reaction networks
• Exploring the performance of spatial stochastic simulation algorithms
• Reduction of round-off errors in chemical kinetics
• A first-passage kinetic Monte Carlo method for reaction-drift-diffusion processes
• ``Final all possible steps approach for accelerating stochastic simulation of coupled chemical reactions
• HRSSA - efficient hybrid stochastic simulation for spatially homogeneous biochemical reaction networks
• Diagnostics for assessing the linear noise and moment closure approximations
• A multilevel adaptive reaction-splitting simulation method for stochastic reaction networks
• A multiple time interval finite state projection algorithm for the solution to the chemical master equation
• The invasion speed of cell migration models with realistic cell cycle time distributions

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