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SBML Level 3 package: Groups, Version 1 Release 1

Hucka, Michael ; Smith, Lucian P.

Journal of Integrative Bioinformatics - JIB (ISSN 1613-4516)

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Biological models often contain components that have relationships with each other, or that modelers want to treat as belonging to groups with common characteristics or shared metadata. The SBML Level 3 Version 1 Core specification does not provide an explicit mechanism for expressing such relationships, but it does provide a mechanism for SBML packages to extend the Core specification and add additional syntactical constructs. The SBML Groups package for SBML Level 3 adds the necessary features to SBML to allow grouping of model components to be expressed. Such groups do not affect the mathematical interpretation of a model, but they do provide a way to add information that can be useful for modelers and software tools. The SBML Groups package enables a modeler to include definitions of groups and nested groups, each of which may be annotated to convey why that group was created, and what it represents.

Institution: Faculty of Technology, Research Groups in Informatics
DDC classification: Data processing, computer science, computer systems

Suggested Citation:
Hucka, Michael ; Smith, Lucian P.  (2016)  SBML Level 3 package: Groups, Version 1 Release 1. Journal of Integrative Bioinformatics - JIB (ISSN 1613-4516), 13(3): Special Issue: COMBINE Standards, 2016

Online-Journal: http://journal.imbio.de/article.php?aid=290
URL: http://biecoll.ub.uni-bielefeld.de/volltexte/2017/5427

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