Accelerating reaction-diffusion simulations with general-purpose graphics processing units

被引：24

作者：

Vigelius, Matthias ^{[1
]}

Lane, Aidan ^{[1
]}

Meyer, Bernd ^{[1
]}

机构：

[1] Monash Univ, FIT Ctr Res Intelligent Syst, Clayton, Vic 3800, Australia

来源：

BIOINFORMATICS | 2011年 / 27卷 / 02期

基金：

澳大利亚研究理事会;

关键词：

STOCHASTIC SIMULATION; PATHWAYS; SYSTEMS;

D O I：

10.1093/bioinformatics/btq622

中图分类号：

Q5 [生物化学];

学科分类号：

071010 ; 081704 ;

摘要：

We present a massively parallel stochastic simulation algorithm (SSA) for reaction-diffusion systems implemented on Graphics Processing Units (GPUs). These are designated chips optimized to process a high number of floating point operations in parallel, rendering them well-suited for a range of scientific high-performance computations. Newer GPU generations provide a high- level programming interface which turns them into General-Purpose Graphics Processing Units (GPGPUs). Our SSA exploits GPGPU architecture to achieve a performance gain of two orders of magnitude over the fastest existing implementations on conventional hardware.

引用

页码：288 / 290

页数：3

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