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SED-ED, a workflow editor for computational biology experiments written in SED-ML.

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Original languageEnglish
Pages (from-to)1180-1181
Number of pages2
JournalBioinformatics
Volume28
Issue number8
Early online date25 Feb 2012
Publication statusPublished - 15 Apr 2012

Abstract

The simulation experiment description markup language (SED-ML) is a new community data standard to encode computational biology experiments in a computer-readable XML format. Its widespread adoption will require the development of software support to work with SED-ML files. Here, we describe a software tool, SED-ED, to view, edit, validate and annotate SED-ML documents while shielding end-users from the underlying XML representation. SED-ED supports modellers who wish to create, understand and further develop a simulation description provided in SED-ML format.
AVAILABILITY AND IMPLEMENTATION: SED-ED is available as a standalone Java application, as an Eclipse plug-in and as an SBSI (www.sbsi.ed.ac.uk) plug-in, all under an MIT open-source license. Source code is at https://sed-ed-sedmleditor.googlecode.com/svn. The application itself is available from https://sourceforge.net/projects/jlibsedml/files/SED-ED/.

    Research areas

  • SBML, Systems Biology, mathematical modeling

ID: 4420289