Efficient stochastic simulation of reaction–diffusion processes via direct compilation
نویسندگان
چکیده
منابع مشابه
Efficient stochastic simulation of reaction–diffusion processes via direct compilation
We present the Stochastic Simulator Compiler (SSC), a tool for exact stochastic simulations of well-mixed and spatially heterogeneous systems. SSC is the first tool to allow a readable high-level description with spatially heterogeneous simulation algorithms and complex geometries; this permits large systems to be expressed concisely. Meanwhile, direct native-code compilation allows SSC to gene...
متن کاملEfficient Simulation of Biological Processes in the Stochastic pi-calculus
This paper presents a simulation algorithm for the stochastic pi-calculus, designed for the efficient simulation of biological systems with large numbers of molecules. The cost of a simulation depends on the number of species, rather than the number of molecules, resulting in a significant gain in efficiency. The algorithm is proved correct with respect to the calculus, and then used as a basis...
متن کاملStochastic control via direct comparison
The standard approach to stochastic control is dynamic programming. In this paper, we introduce an alternative approach based on direct comparison of the performance of any two policies. This is achieved by modeling the state process as a continuous-time and continuous-state Markov process and applying the same ideas as for the discrete-time and discrete-state case. This approach is simple and ...
متن کاملStochastic Simulation of Coupled Reaction–Diffusion Processes
actants is used to compute the time evolution of reactant concentrations. The stochastic algorithm is rigorous in the The stochastic time evolution method has been used previously to study non-linear chemical reaction processes in well-stirred hosense that it provides an exact solution to the correspondmogeneous systems. We present the first treatment of diffusion, in ing master equation for ch...
متن کاملSimulation of Stochastic Processes in Financial Modeling
This paper discusses theoretical properties, shows the performance and presents some extensions of techniques used for simulation of stochastic differential equation applied on the financial data modeling. There are realized comparisons of different approaches for discretization schemes and their performances from the simulation convergence point of view. This study shows that, depending on the...
متن کاملذخیره در منابع من
با ذخیره ی این منبع در منابع من، دسترسی به آن را برای استفاده های بعدی آسان تر کنید
ژورنال
عنوان ژورنال: Bioinformatics
سال: 2009
ISSN: 1460-2059,1367-4803
DOI: 10.1093/bioinformatics/btp387