Extracting reproducible simulation studies from model repositories using the combinearchive toolkit
| dc.contributor.author | Scharm, Martin | |
| dc.contributor.author | Waltemath, Dagmar | |
| dc.contributor.editor | Ritter, Norbert | |
| dc.contributor.editor | Henrich, Andreas | |
| dc.contributor.editor | Lehner, Wolfgang | |
| dc.contributor.editor | Thor, Andreas | |
| dc.contributor.editor | Friedrich, Steffen | |
| dc.contributor.editor | Wingerath, Wolfram | |
| dc.date.accessioned | 2017-06-30T11:39:35Z | |
| dc.date.available | 2017-06-30T11:39:35Z | |
| dc.date.issued | 2015 | |
| dc.description.abstract | The 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.isbn | 978-3-88579-636-7 | |
| dc.identifier.pissn | 1617-5468 | |
| dc.language.iso | en | |
| dc.publisher | Gesellschaft für Informatik e.V. | |
| dc.relation.ispartof | Datenbanksysteme für Business, Technologie und Web (BTW 2015) - Workshopband | |
| dc.relation.ispartofseries | Lecture Notes in Informatics (LNI) - Proceedings, Volume P-242 | |
| dc.title | Extracting reproducible simulation studies from model repositories using the combinearchive toolkit | en |
| dc.type | Text/Conference Paper | |
| gi.citation.endPage | 142 | |
| gi.citation.publisherPlace | Bonn | |
| gi.citation.startPage | 137 | |
| gi.conference.date | 2.-3. März 2015 | |
| gi.conference.location | Hamburg |
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