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A Spiking Neural P system simulator based on CUDA

Francis Cabarle, Henry Adorna, Miguel A. Martinez-del-Amor
Algorithms & Complexity Lab, Department of Computer Science, University of the Philippines Diliman, Diliman 1101 Quezon City, Philippines
Membrane Computing, Lecture Notes in Computer Science, Volume 7184/2012, 87-103, 2012

@article{cabarle2012spiking,

   title={A Spiking Neural P system simulator based on CUDA},

   author={Cabarle, F. and Adorna, H. and Mart{‘i}nez, M.},

   journal={Membrane Computing},

   pages={87–103},

   year={2012},

   publisher={Springer}

}

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In this paper we present a Spiking Neural P system (SNP system) simulator based on graphics processing units (GPUs). In particular we implement the simulator using NVIDIA CUDA enabled GPUs. The massively parallel architecture of current GPUs is very suitable for the maximally parallel computations of SNP systems. We simulate a wider variety of SNP systems, after presenting a previous work on SNP system matrix representation which led to their simulation in GPUs, and the simulation algorithm included here. Finally, we compare and present the performance speedups of the CPU-GPU based simulator over the CPU only simulator.
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