Literature DB >> 1281353

Rallpacks: a set of benchmarks for neuronal simulators.

U S Bhalla1, D H Bilitch, J M Bower.   

Abstract

The field of computational neurobiology has advanced to the point where there are several general-purpose simulators to choose from. These cater to various niches in the world of realistic neuronal models, which range from the molecular level to descriptions of entire sensory modalities. In addition, there are numerous custom-designed simulations, adaptations of electrical circuit simulators, and other specific implementations of neurobiological models. As a first step towards evaluating this disparate set of simulators and simulations, and towards establishing standards for comparisons of speed and accuracy, we describe a set of benchmarks. These have been given the name 'Rallpacks' in honor of Wilfrid Rall, who pioneered the study of neuronal systems through analytical and numerical techniques.

Mesh:

Year:  1992        PMID: 1281353     DOI: 10.1016/0166-2236(92)90009-w

Source DB:  PubMed          Journal:  Trends Neurosci        ISSN: 0166-2236            Impact factor:   13.837


  19 in total

1.  Simulation studies of vestibular macular afferent-discharge patterns using a new, quasi-3-D finite volume method.

Authors:  M D Ross; S W Linton; B R Parnas
Journal:  J Comput Neurosci       Date:  2000 Jan-Feb       Impact factor: 1.621

2.  Additional efficient computation of branched nerve equations: adaptive time step and ideal voltage clamp.

Authors:  L J Borg-Graham
Journal:  J Comput Neurosci       Date:  2000 May-Jun       Impact factor: 1.621

3.  Morphologically accurate reduced order modeling of spiking neurons.

Authors:  Anthony R Kellems; Saifon Chaturantabut; Danny C Sorensen; Steven J Cox
Journal:  J Comput Neurosci       Date:  2010-03-19       Impact factor: 1.621

Review 4.  Simulation of networks of spiking neurons: a review of tools and strategies.

Authors:  Romain Brette; Michelle Rudolph; Ted Carnevale; Michael Hines; David Beeman; James M Bower; Markus Diesmann; Abigail Morrison; Philip H Goodman; Frederick C Harris; Milind Zirpe; Thomas Natschläger; Dejan Pecevski; Bard Ermentrout; Mikael Djurfeldt; Anders Lansner; Olivier Rochel; Thierry Vieville; Eilif Muller; Andrew P Davison; Sami El Boustani; Alain Destexhe
Journal:  J Comput Neurosci       Date:  2007-07-12       Impact factor: 1.621

5.  Accuracy evaluation of numerical methods used in state-of-the-art simulators for spiking neural networks.

Authors:  Stephan Henker; Johannes Partzsch; René Schüffny
Journal:  J Comput Neurosci       Date:  2011-08-12       Impact factor: 1.621

6.  The intrinsic electrophysiological characteristics of fly lobula plate tangential cells: I. Passive membrane properties.

Authors:  A Borst; J Haag
Journal:  J Comput Neurosci       Date:  1996-12       Impact factor: 1.621

7.  Virtual NEURON: a strategy for merged biochemical and electrophysiological modeling.

Authors:  Sherry-Ann Brown; Ion I Moraru; James C Schaff; Leslie M Loew
Journal:  J Comput Neurosci       Date:  2011-02-22       Impact factor: 1.621

Review 8.  Solutions for transients in arbitrarily branching cables: I. Voltage recording with a somatic shunt.

Authors:  G Major; J D Evans; J J Jack
Journal:  Biophys J       Date:  1993-07       Impact factor: 4.033

9.  Stochastic ion channel gating in dendritic neurons: morphology dependence and probabilistic synaptic activation of dendritic spikes.

Authors:  Robert C Cannon; Cian O'Donnell; Matthew F Nolan
Journal:  PLoS Comput Biol       Date:  2010-08-12       Impact factor: 4.475

10.  STEPS: efficient simulation of stochastic reaction-diffusion models in realistic morphologies.

Authors:  Iain Hepburn; Weiliang Chen; Stefan Wils; Erik De Schutter
Journal:  BMC Syst Biol       Date:  2012-05-10
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