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Extracting reproducible simulation studies from model repositories using the combinearchive toolkit

dc.contributor.authorScharm, Martin
dc.contributor.authorWaltemath, Dagmar
dc.contributor.editorRitter, Norbert
dc.contributor.editorHenrich, Andreas
dc.contributor.editorLehner, Wolfgang
dc.contributor.editorThor, Andreas
dc.contributor.editorFriedrich, Steffen
dc.contributor.editorWingerath, Wolfram
dc.date.accessioned2017-06-30T11:39:35Z
dc.date.available2017-06-30T11:39:35Z
dc.date.issued2015
dc.description.abstractThe COMBINE archive is a digital container format for files related to a virtual experiment in computational biology. It eases the management of numerous files related to a simulation study, fosters collaboration, and ultimately enables the exchange of reproducible research results. The CombineArchive Toolkit is a software for creating, exploring, modifying, and sharing COMBINE archives. Open model repositories such as BioModels Database are a valuable resource of models and associated simulation descriptions. However, so far no tool exists to export COMBINE archives for a given simulation study from such databases. Here we demonstrate how the CombineArchive Toolkit can be used to extract reproducible simulation studies from model repositories. We use the example of Masymos, a graph database with a sophisticated link concept to connect model-related files on the storage layer.en
dc.identifier.isbn978-3-88579-636-7
dc.identifier.pissn1617-5468
dc.language.isoen
dc.publisherGesellschaft für Informatik e.V.
dc.relation.ispartofDatenbanksysteme für Business, Technologie und Web (BTW 2015) - Workshopband
dc.relation.ispartofseriesLecture Notes in Informatics (LNI) - Proceedings, Volume P-242
dc.titleExtracting reproducible simulation studies from model repositories using the combinearchive toolkiten
dc.typeText/Conference Paper
gi.citation.endPage142
gi.citation.publisherPlaceBonn
gi.citation.startPage137
gi.conference.date2.-3. März 2015
gi.conference.locationHamburg

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