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Title

MathSBML
Authors

Bruce E Shapiro
Organization: Caltech
Department: Control and Dynamical Systems
Michael Hucka
Organization: California Institute of Technology
Department: Control and Dynamical Systems
Albert Finney
Organization: University of Hertfordshire
Department: Science and Technology Research Center
John Doyle
Organization: California Institute of Technology
Department: Control and Dynamical Systems
Old MathSource #

4859
Revision date

2004-04-28
Description

MathSBML is a Mathematica package designed for manipulating Systems Biology Markup Language (SBML) models. It converts SBML models into Mathematica data structures and provides a platform for manipulating and evaluating these models. Once a model is read by MathSBML, it is fully compatible with standard Mathematica functions such as NDSolve (a differential-algebraic equations solver). MathSBML also provides an application programming interface for viewing, manipulating, running numerical simulations; exporting SBML models; and converting SBML models to other formats such as XPP, HTML, FORTRAN. By accessing the full breadth of Mathematica functionality, MathSBML is fully extensible to SBML models of any size or complexity.

MathSBML can be downloaded from Sourceforge. More information is available at Bioinformatics and the SBML homepage.


This is a duplicate of Infocenter item 4859.
Subjects

*Information Science and Technology > Internet > XML
*Science > Bioinformatics
*Science > Biology
*Science > Chemistry
Keywords

Bioinformatics, SBML, reactions, biology, signal transduction, chemical reaction, Systems Biology Markup Language, XML, biochemistry
URL

http://bioinformatics.oupjournals.org/cgi/content/abstract/bth271v1
http://www.sbml.org/mathsbml.html
http://www.sf.net/projects/sbml