Year: 2011
Type: article
Abstract: SUMMARY: The specifications of the Systems Biology Markup Language (SBML) define standards for storing and exchanging computer models of biological processes in text files. In order to perform model simulations, graphical visualizations and other software manipulations, an in-memory representation of SBML is required. We developed JSBML for this purpose. In contrast to prior implementations of SBML APIs, JSBML has been designed from the ground up for the Java programming language, and can therefore be used on all platforms supported by a Java Runtime Environment. This offers important benefits for Java users, including the ability to distribute software as Java Web Start applications. JSBML supports all SBML Levels and Versions through Level 3 Version 1, and we have strived to maintain the highest possible degree of compatibility with the popular library libSBML. JSBML also supports modules that can facilitate the development of plugins for end user applications, as well as ease migration from a libSBML-based backend. AVAILABILITY: Source code, binaries and documentation for JSBML can be freely obtained under the terms of the LGPL 2.1 from the website http://sbml.org/Software/JSBML.
Source: Bioinformatics
Language: English
Subfield: Molecular Biology
Domain: Life Sciences
Open Access status: hybrid
Estimated APC paid: $3,989
Awards: BioModels Database: a Unified resource for Systems Biology models, MedSys-Verbundvorhaben - Spher4Sys: Systembiologie-basiertes Verfahren für die Entwicklung von präklinischen Leitstrukturen unter Benutzung eines in-vivo-nahen Spheroid-Testsystems, Teilprojekt 4, Continued Support of Essential SBML Software and Community Resources, Kompetenznetz 'Die Virtuelle Leber' - Teilprojekte A3.4, B5, C7
OpenAlex ID: W2162144833