Neuron splitting in compute-bound parallel network simulations enables runtime scaling with twice as many processors.

Journal of Computational Neuroscience
Michael L HinesFelix Schürmann

Abstract

Neuron tree topology equations can be split into two subtrees and solved on different processors with no change in accuracy, stability, or computational effort; communication costs involve only sending and receiving two double precision values by each subtree at each time step. Splitting cells is useful in attaining load balance in neural network simulations, especially when there is a wide range of cell sizes and the number of cells is about the same as the number of processors. For compute-bound simulations load balance results in almost ideal runtime scaling. Application of the cell splitting method to two published network models exhibits good runtime scaling on twice as many processors as could be effectively used with whole-cell balancing.

References

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Oct 1, 1996·Journal of Neuroscience Methods·M J Riggott, W D Matthew
Aug 15, 1997·Neural Computation·M L Hines, N T Carnevale
Jan 24, 2006·Nature Reviews. Neuroscience·Henry Markram
May 30, 2006·Journal of Computational Neuroscience·M MiglioreM L Hines
Nov 13, 2007·Journal of Neuroscience Methods·M L Hines, N T Carnevale
Apr 2, 2008·Journal of Computational Neuroscience·Michael L HinesFelix Schürmann

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Citations

Apr 2, 2008·Journal of Computational Neuroscience·Michael L HinesFelix Schürmann
May 29, 2008·Journal of Computational Neuroscience·Rogerio R L Cisi, André F Kohn
Oct 10, 2015·Cell·Henry MarkramFelix Schürmann
Oct 24, 2014·PLoS Computational Biology·Calvin J SchneiderIvan Soltesz
Aug 25, 2016·Neural Computation·William W LyttonMichael L Hines
Sep 23, 2016·Neuroinformatics·David B Stockton, Fidel Santamaria
Mar 6, 2010·Journal of Integrative Neuroscience·Alexander S Ratushnyak, Tatiana A Zapara
Nov 1, 2016·Cerebral Cortex·Espen HagenGaute T Einevoll
Jun 11, 2020·Hippocampus·András EckerSrikanth Ramaswamy
Jun 10, 2017·Frontiers in Neuroinformatics·Jan HahneMarkus Diesmann
Apr 27, 2019·ELife·Salvador Dura-BernalWilliam W Lytton
Aug 5, 2017·Frontiers in Neuroinformatics·Ruben A Tikidji-HamburyanTarek A El-Ghazawi

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Software Mentioned

Recv
Splitcell
NEURON
MPI
Send

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