Systems Biology Toolbox for MATLAB: a computational platform for research in systems biology
نویسندگان
چکیده
منابع مشابه
Systems Biology Toolbox for MATLAB: a computational platform for research in systems biology
We present a Systems Biology Toolbox for the widely used general purpose mathematical software MATLAB. The toolbox offers systems biologists an open and extensible environment, in which to explore ideas, prototype and share new algorithms, and build applications for the analysis and simulation of biological and biochemical systems. Additionally it is well suited for educational purposes. The to...
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This document briefly introduces parallel computations on graphics processing units (GPUs) and the implemented exact stochastic simulation algorithms (i) the stochastic simulation algorithm (SSA) byGillespie [5], (ii) the logarithmic direct method (LDM) by Li and Petzold [10] and (iii) the next reaction method of Gibson and Bruck [3]. The LDM and NRM are more efficient reformulations of the SSA...
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MOTIVATION The importance of stochasticity in biological systems is becoming increasingly recognized and the computational cost of biologically realistic stochastic simulations urgently requires development of efficient software. We present a new software tool STOCHSIMGPU that exploits graphics processing units (GPUs) for parallel stochastic simulations of biological/chemical reaction systems a...
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ژورنال
عنوان ژورنال: Bioinformatics
سال: 2005
ISSN: 1367-4803,1460-2059
DOI: 10.1093/bioinformatics/bti799