Original Research Article

A component-based extension framework for large-scale parallel simulations in NEURON

1
Brain Mind Institute, Ecole Polytechnique Fédérale de Lausanne, Switzerland
2
Department of Computer Science, Yale University, USA
3
Internal Medicine & Program in Biomedical Engineering, University of Nevada, USA

As neuronal simulations approach larger scales with increasing levels of detail, the neurosimulator software represents only a part of a chain of tools ranging from setup, simulation, interaction with virtual environments, analysis and visualization. Previously published approaches to abstracting simulator engines have not received wide-spread acceptance, which in part may be to the fact that they tried to address the challenge of solving the model specification problem. Here, we present an approach that uses a neurosimulator, in this case NEURON, to describe and instantiate the network model in its native model language but then replaces the main integration loop with its own. Existing parallel network models are easily adopted to run in the presented framework. The presented approach is thus an extension to NEURON but uses a component-based architecture to allow for replaceable spike exchange components and pluggable components for monitoring, analysis, or control that can run in this framework alongside with the simulation.

Keywords: large-scale simulation, NEURON simulator, parallel, distributed

Citation: King JG, Hines M, Hill S, Goodman PH, Markram H and Schürmann F (2009) A component-based extension framework for large-scale parallel simulations in NEURON. Front. Neuroinform. 3:10. doi:10.3389/neuro.11.010.2009

Received: 10 December 2008; Paper pending published: 18 December 2008; Accepted: 08 April 2009; Published online: 27 April 2009.

Edited by: 
Erik De Schutter, Okinawa Institute of Science and Technology, Japan; University of Antwerp, Belgium

Reviewed by: 
Robert C. Cannon, Textensor Limited, UK
Hugo Cornelis, University of Texas Health Science Center at San Antonio, USA

Copyright: © 2009 King, Hines, Hill, Goodman, Markram and Schürmann. This is an open-access article subject to an exclusive license agreement between the authors and the Frontiers Research Foundation, which permits unrestricted use, distribution, and reproduction in any medium, provided the original authors and source are credited.

*Correspondence: Dr. Felix Schuermann EPFL- Brain Mind Institute Station 15 1015 Lausanne, Switzerland felix.schuermann@epfl.ch

AddThis Social Bookmark Button
Article Analytics

© 2009 Frontiers Media S.A. All Rights Reserved