NEURON
Parallel network simulations with NEURON. The NEURON simulation environment has been extended to support parallel network simulations. Each processor integrates the equations for its subnet over an interval equal to the minimum (interprocessor) presynaptic spike generation to postsynaptic spike delivery connection delay. The performance of three published network models with very different spike patterns exhibits superlinear speedup on Beowulf clusters and demonstrates that spike communication overhead is often less than the benefit of an increased fraction of the entire problem fitting into high speed cache. On the EPFL IBM Blue Gene, almost linear speedup was obtained up to 100 processors. Increasing one model from 500 to 40,000 realistic cells exhibited almost linear speedup on 2000 processors, with an integration time of 9.8 seconds and communication time of 1.3 seconds. The potential for speed-ups of several orders of magnitude makes practical the running of large network simulations that could otherwise not be explored.
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References in zbMATH (referenced in 173 articles , 1 standard article )
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Sorted by year (- Gilson, Matthieu; Pfister, Jean-Pascal: Propagation of spiking moments in linear Hawkes networks (2020)
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- Dione, Ibrahima; Doyon, Nicolas; Deteix, Jean: Sensitivity analysis of the Poisson Nernst-Planck equations: a finite element approximation for the sensitive analysis of an electrodiffusion model (2019)
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- Zhukov, Oleg A.; Kazakova, Tatiana A.; Maksimov, Georgy V.; Brazhe, Alexey R.: Cost of auditory sharpness: model-based estimate of energy use by auditory brainstem “octopus” neurons (2019)
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- Barranca, Victor J.; Zhu, Xiuqi George: A computational study of the role of spatial receptive field structure in processing natural and non-natural scenes (2018)
- Jaramillo, Gabriela; Venkataramani, Shankar C.: Target patterns in a 2D array of oscillators with nonlocal coupling (2018)
- Kufel, Dominik S.; Wojcik, Grzegorz M.: Analytical modelling of temperature effects on an AMPA-type synapse (2018)
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- Morel, Danielle; Singh, Chandan; Levy, William B.: Linearization of excitatory synaptic integration at no extra cost (2018)
- Sadashivaiah, Vijay; Sacré, Pierre; Guan, Yun; Anderson, William S.; Sarma, Sridevi V.: Modeling the interactions between stimulation and physiologically induced APs in a mammalian nerve fiber: dependence on frequency and fiber diameter (2018)
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- Bestel, Robert; Appali, Revathi; van Rienen, Ursula; Thielemann, Christiane: Effect of morphologic features of neurons on the extracellular electric potential: a simulation study using cable theory and electro-quasi-static equations (2017)
- Coventry, Brandon S.; Parthasarathy, Aravindakshan; Sommer, Alexandra L.; Bartlett, Edward L.: Hierarchical winner-take-all particle swarm optimization social network for neural model fitting (2017)