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


BACKGROUND
The software is freely available at http://www.csse.monash.edu.au/~berndm/inchman/.
FIT Centre for Research in Intelligent Systems, Monash University, Clayton, Victoria, Australia. matthias.vigelius@monash.edu
Matthias
M
Vigelius
Aidan
A
Lane
Bernd
B
Meyer
D000465:Algorithms; D003196:Computer Graphics; D003205:Computing Methodologies; D012984:Software; D013269:Stochastic Processes