JS']JSBML: a flexible Java']Java library for working with SBML

被引：48

作者：

Draeger, Andreas ^{[1
]}

Rodriguez, Nicolas ^{[2
]}

Dumousseau, Marine ^{[2
]}

Doerr, Alexander ^{[1
]}

Wrzodek, Clemens ^{[1
]}

Le Novere, Nicolas ^{[2
]}

Zell, Andreas ^{[1
]}

Hucka, Michael ^{[3
]}

机构：

[1] Univ Tubingen, Ctr Bioinformat Tuebingen ZBIT, Tubingen, Germany

[2] Wellcome Trust Genome Campus, European Bioinformat Inst, Cambridge, England

[3] CALTECH, Pasadena, CA 91125 USA

来源：

BIOINFORMATICS | 2011年 / 27卷 / 15期

基金：

英国生物技术与生命科学研究理事会;

关键词：

MODELS;

D O I：

10.1093/bioinformatics/btr361

中图分类号：

Q5 [生物化学];

学科分类号：

071010 ; 081704 ;

摘要：

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 T 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.

引用

页码：2167 / 2168

页数：2

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