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DynaSim: a MATLAB toolbox for neural modeling and simulation

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DynaSim: a MATLAB toolbox for neural modeling and simulation

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dc.contributor.author Sherfey, Jason S. es_ES
dc.contributor.author Soplata, Austin E. es_ES
dc.contributor.author Ardid-Ramírez, Joan Salvador es_ES
dc.contributor.author Roberts, Erik A. es_ES
dc.contributor.author Stanley, David A. es_ES
dc.contributor.author Pittman-Polletta, Benjamin R. es_ES
dc.contributor.author Kopell, Nancy J. es_ES
dc.date.accessioned 2021-06-09T03:31:48Z
dc.date.available 2021-06-09T03:31:48Z
dc.date.issued 2018-03-15 es_ES
dc.identifier.uri http://hdl.handle.net/10251/167602
dc.description.abstract [EN] DynaSim is an open-source MATLAB/GNU Octave toolbox for rapid prototyping of neural models and batch simulation management. It is designed to speed up and simplify the process of generating, sharing, and exploring network models of neurons with one or more compartments. Models can be specified by equations directly (similar to XPP or the Brian simulator) or by lists of predefined or custom model components. The higher-level specification supports arbitrarily complex population models and networks of interconnected populations. DynaSim also includes a large set of features that simplify exploring model dynamics over parameter spaces, running simulations in parallel using both multicore processors and high-performance computer clusters, and analyzing and plotting large numbers of simulated data sets in parallel. It also includes a graphical user interface (DynaSim GUI) that supports full functionality without requiring user programming. The software has been implemented in MATLAB to enable advanced neural modeling using MATLAB, given its popularity and a growing interest in modeling neural systems. The design of DynaSim incorporates a novel schema for model specification to facilitate future interoperability with other specifications (e.g., NeuroML, SBML), simulators (e.g., NEURON, Brian, NEST), and web-based applications (e.g., Geppetto) outside MATLAB. DynaSim is freely available at http://dynasimtoolbox.org. This tool promises to reduce barriers for investigating dynamics in large neural models, facilitate collaborative modeling, and complement other tools being developed in the neuroinformatics community. es_ES
dc.description.sponsorship This material is based upon research supported by the U.S. Army Research Office under award number ARO W911NF-12-R-0012-02, the U.S. Office of Naval Research under award number ONR MURI N00014-16-1-2832, and the National Science Foundation under award number NSF DMS-1042134 (Cognitive Rhythms Collaborative: A Discovery Network) es_ES
dc.language Inglés es_ES
dc.publisher Frontiers Media SA es_ES
dc.relation.ispartof Frontiers in Neuroinformatics es_ES
dc.rights Reconocimiento (by) es_ES
dc.subject Dynamical systems es_ES
dc.subject Neural models es_ES
dc.subject GNU octave es_ES
dc.subject Neuroscience gateway es_ES
dc.subject Graphical user interface es_ES
dc.subject Code generation es_ES
dc.subject Code:matlab es_ES
dc.subject.classification FISICA APLICADA es_ES
dc.title DynaSim: a MATLAB toolbox for neural modeling and simulation es_ES
dc.type Artículo es_ES
dc.identifier.doi 10.3389/fninf.2018.00010 es_ES
dc.relation.projectID info:eu-repo/grantAgreement/ARO//W911NF-12-R-0012-02/US/Event-Driven Game Theory for Predicting Dynamical Systems/ es_ES
dc.relation.projectID info:eu-repo/grantAgreement/NSF//1042134/US/Cognitive Rhythms Collaborative: A Discovery Network/ es_ES
dc.relation.projectID info:eu-repo/grantAgreement/ONR//N00014-16-1-2832/US/ONR MURI: Neural circuits underlying symbolic processing in primate cortex and basal ganglia/ es_ES
dc.rights.accessRights Abierto es_ES
dc.contributor.affiliation Universitat Politècnica de València. Instituto de Investigación para la Gestión Integral de Zonas Costeras - Institut d'Investigació per a la Gestió Integral de Zones Costaneres es_ES
dc.description.bibliographicCitation Sherfey, JS.; Soplata, AE.; Ardid-Ramírez, JS.; Roberts, EA.; Stanley, DA.; Pittman-Polletta, BR.; Kopell, NJ. (2018). DynaSim: a MATLAB toolbox for neural modeling and simulation. Frontiers in Neuroinformatics. 12:1-15. https://doi.org/10.3389/fninf.2018.00010 es_ES
dc.description.accrualMethod S es_ES
dc.relation.publisherversion https://doi.org/10.3389/fninf.2018.00010 es_ES
dc.description.upvformatpinicio 1 es_ES
dc.description.upvformatpfin 15 es_ES
dc.type.version info:eu-repo/semantics/publishedVersion es_ES
dc.description.volume 12 es_ES
dc.identifier.eissn 1662-5196 es_ES
dc.identifier.pmid 29599715 es_ES
dc.identifier.pmcid PMC5862864 es_ES
dc.relation.pasarela S\434974 es_ES
dc.contributor.funder Office of Naval Research es_ES
dc.contributor.funder Army Research Office, EEUU es_ES
dc.contributor.funder National Science Foundation, EEUU es_ES
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