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GDSCalc: A Web-Based Application for Evaluating Discrete Graph Dynamical Systems

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dc.contributor.authorAbdelhamid, S. H. E.en
dc.contributor.authorKuhlman, Christopher J.en
dc.contributor.authorMarathe, Madhav V.en
dc.contributor.authorMortveit, H. S.en
dc.contributor.authorRavi, S. S.en
dc.contributor.departmentComputer Scienceen
dc.contributor.departmentFralin Life Sciences Instituteen
dc.date.accessioned2018-01-26T15:14:30Zen
dc.date.available2018-01-26T15:14:30Zen
dc.date.issued2015-08-11en
dc.description.abstractDiscrete dynamical systems are used to model various realistic systems in network science, from social unrest in human populations to regulation in biological networks. A common approach is to model the agents of a system as vertices of a graph, and the pairwise interactions between agents as edges. Agents are in one of a finite set of states at each discrete time step and are assigned functions that describe how their states change based on neighborhood relations. Full characterization of state transitions of one system can give insights into fundamental behaviors of other dynamical systems. In this paper, we describe a discrete graph dynamical systems (GDSs) application called GDSCalc for computing and characterizing system dynamics. It is an open access system that is used through a web interface. We provide an overview of GDS theory. This theory is the basis of the web application; i.e., an understanding of GDS provides an understanding of the software features, while abstracting away implementation details. We present a set of illustrative examples to demonstrate its use in education and research. Finally, we compare GDSCalc with other discrete dynamical system software tools. Our perspective is that no single software tool will perform all computations that may be required by all users; tools typically have particular features that are more suitable for some tasks. We situate GDSCalc within this space of software tools.en
dc.description.versionPublished versionen
dc.format.extent24 pagesen
dc.format.mimetypeapplication/pdfen
dc.identifier.doihttps://doi.org/10.1371/journal.pone.0133660en
dc.identifier.issn1932-6203en
dc.identifier.issue8en
dc.identifier.orcidMarathe, MV [0000-0003-1653-0658]en
dc.identifier.urihttp://hdl.handle.net/10919/81941en
dc.identifier.volume10en
dc.language.isoenen
dc.publisherPLOSen
dc.relation.urihttp://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000359353300010&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=930d57c9ac61a043676db62af60056c1en
dc.rightsCreative Commons Attribution 4.0 Internationalen
dc.rights.urihttp://creativecommons.org/licenses/by/4.0/en
dc.subjectGENE REGULATORY NETWORKSen
dc.subjectCELLULAR-AUTOMATAen
dc.subjectBOOLEAN NETWORKSen
dc.subjectSIMULATIONen
dc.subjectMODELSen
dc.subjectSTABILITYen
dc.subjectGINSIMen
dc.titleGDSCalc: A Web-Based Application for Evaluating Discrete Graph Dynamical Systemsen
dc.title.serialPLOS ONEen
dc.typeArticle - Refereeden
dc.type.dcmitypeTexten
pubs.organisational-group/Virginia Techen
pubs.organisational-group/Virginia Tech/All T&R Facultyen
pubs.organisational-group/Virginia Tech/University Research Institutesen
pubs.organisational-group/Virginia Tech/University Research Institutes/Biocomplexity Instituteen
pubs.organisational-group/Virginia Tech/University Research Institutes/Biocomplexity Institute/Researchersen
pubs.organisational-group/Virginia Tech/University Research Institutes/Biocomplexity Institute/SelectedFaculty1en

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