Integrated network reconstruction, visualization and analysis
Roland Schwarz, Chunguang Liang and Thomas Dandekar
Department of Bioinformatics, Biocenter, University of Würzburg, 97074 Würzburg, Germany
YANA is a user friendly software package for the analysis of metabolic networks. It is capable of performing elementary mode analysis on those networks and incorporates new algorithms for mapping elementary mode activities to enzyme activities and vice versa. It features automatic extraction of metabolic networks from KEGG and visualization of metabolic networks as bipartite graphs.
YANA was written in Java and is available for Windows and Unix systems. It includes a graphical user interface for the easy editing of metabolic networks and is capable of reading and writing the METATOOL file format as well as the SBML Level 2 file format (http://www.sbml.org).
YANA requires the Java Runtime Environment 1.5 (http://java.sun.com/j2se/1.5.0/download.jsp) and the following libraries, which are included in the download archive:
GenJava-CSV (© 2003, Henri Yandell)
Jakarta Common Collections 3.1 (© 2004, The Apache Software Foundation)
JFreeChart 0.9.21 (© 2004, Object Refinery Limited and Contributors)
JigCell Modelbuilder (© 2004, Virginia Polytechnic Institute and State University)
JMat 5.0 (© 2004, Yann Richet)
Mosfet Liquid L&F (© 2004, Miroslav Lazarevic)
Noia KDE 1.00 (© Carles Carbonell Bernado)
YANA is distributed under the GNU General Public License (GPL). For more information, see http://www.gnu.org/copyleft/gpl.html or the LICENSE file which comes with the download archive.