Journal Article

Simulation of networks of spiking neurons: A review of tools and strategies

Rudolph, Michelle, Davison, Andrew P., El Boustani, Sami, Morrison, Abigail, Natschläger, Thomas, Djurfeldt, Mikael, Brette, Romain, Lansner, Anders, Harris, Frederick C., Vieville, Thierry, Carnevale, Ted, Beeman, David, Diesmann, Markus, Rochel, Olivier, Destexhe, Alain, Goodman, Philip H., Zirpe, Milind, Hines, Michael, Pecevski, Dejan, Ermentrout, Bard, Muller, Eilif, Bower, James M.

2007

Overview

We review different aspects of the simulation of spiking neural networks. We start by reviewing the different types of simulation strategies and algorithms that are currently implemented. We next review the precision of those simulation strategies, in particular in cases where plasticity depends on the exact timing of the spikes. We overview different simulators and simulation environments presently available (restricted to those freely available, open source and documented). For each simulation tool, its advantages and pitfalls are reviewed, with an aim to allow the reader to identify which simulator is appropriate for a given task. Finally, we provide a series of benchmark simulations of different types of networks of spiking neurons, including Hodgkin-Huxley type, integrate-and-fire models, interacting with current-based or conductance-based synapses, using clock-driven or event-driven integration strategies. The same set of models are implemented on the different simulators, and the codes are made available. The ultimate goal of this review is to provide a resource to facilitate identifying the appropriate integration strategy and simulation tool to use for a given modeling problem related to spiking neural networks.

• Publisher: Springer Nature B.V,Springer Verlag
• Subject: Algorithms / Animals / asymmetric hebbian plasticity / clock-driven / computational model / Computer Simulation / Electrophysiology / event-driven / event-driven simulation / fire neurons / Humans / integration strategies / Life Sciences / Models, Neurological / nerve equations / Nerve Net - cytology / Nerve Net - physiology / neural-network / Neurons - physiology / Neurons and Cognition / olfactory-bulb / pyramidal neurons / simulation tools / Software / spiking neural networks / Synapses - physiology / synaptic conductances / visual-cortex