Conversion of SBML files into human-readable reports

Andreas Dräger1, Hannes Planatscher1, Dieudonné Motsou Wouamba1, Adrian Schröder1, Michael Hucka2, Lukas Endler3, Martin Golebiewski4, Wolfgang Müller4, and Andreas Zell1

1Center for Bioinformatics Tübingen (ZBIT), Germany, 2California Institute of Technology, Beckman Institute BNMC, Pasadena, United States, 3European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, United Kingdom, 4Scientific Databases and Visualization Group, EML Research gGmbH, Heidelberg, Germany

Short description: SBML2LATEX is a tool to convert files in the System Biology Markup Language SBML) format into LATEX files. A convenient online version is available, which allows the user to directly generate report from SBML in form of PDF or TeX, which can be further processed to various file types including DVI, PS, EPS, GIF, JPG, or PNG. SBML2LATEX can also be downloaded and used locally in batch mode or interactively with its Graphical User Interface or several command line options. The purpose of SBML2LATEX is to provide a way to read the contents of XML-based SBML files. This is helpful and important for, e.g., error detection, proofreading and model communication.

Please cite: Dräger A, Planatscher H, Wouamba DM, Schröder A, Hucka M, Endler L, Golebiewski M, Müller W, and Zell A: “SBML2LATEX: Conversion of SBML files into human-readable reports”, Bioinformatics 2009. [details], [ PDF ]

New release: SBML2LATEX version 0.9.9 can now be downloaded at the download section. This new version has become much simpler, the file is smaller and can directly be launched by double clicking. It is based on the latest release of JSBML (version 0.8-rc1). See the release notes for new features and bug fixes.   -   (draeger - 2011-12-15 15:48)
SBML2LATEX version 0.9.8 is now available on the download page. This new version supports SBML Level 3 Version 1 and is based on JSBML. It provides a new option to write the entire differential equation system instead of links to the rate equations only and is able to directly create PDF files using LATEX and to open the result in the system's default PDF viewer.   -   (draeger - 2011-03-08 8:47)

Full support of SBML Level 2 Version 4: SBML2LATEX version 0.9.6 was released that uses libSBML 3.3.1 and therefore supports the new specification of SBML. The new release contains a convenient bash script that automatically downloads and installs libSBML 3.3.1 with Xerces 3.0.0 on your system.   -   (draeger - 2009-02-04 14:29)

Web Service available: This web service provides a convenient way of using SBML2LATEX and creates various file formats including PDF, PS, DVI and TeX.   -   (draeger - 2008-12-16 13:15)

First Release: Launch the download link. Note that libSBML 3.2 or higher is required for this program.  -   (draeger - 2008-12-16 09:23)

This project is promoted by:

NGFN BMBF ZBIT Virtual Liver