On the Statistical Accuracy of Stochastic Simulation Algorithms Implemented in Dizzy
نویسندگان
چکیده
Stochastic simulation is in widespread use for analyzing biological pathways. Due to the limited efficiency of a straightforward direct implementation such as the Gillespie algorithm, various improvements and approximate algorithms have been developed. For user-friendliness it is important to have efficient implementations available in software tools. Another important issue is the statistical accuracy of simulation results in terms of variances, confidence intervals, or related measures. We address the problem of computing such statistics for Dizzy, a software tool that has been recommended in a recent study of the userfriendliness of software tools. Therefore, a mathematical framework for statistical output analysis of simulation results is provided, the need for statistics as well as the lack of user support in actually obtaining such statistics with Dizzy and other tools is emphasized, and recommendations for future extensions of software tools are given.
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