VIZARD

Version 1.2 (March 12, 2002)

Copyrightę 2001-2002. The Regents of the University of California (Regents). All Rights Reserved.


SOFTWARE COPYRIGHT NOTICE AND DISCLAIMER

Permission to use, copy, modify, and distribute this software and its documentation for educational, research, and not-for-profit purposes, without fee and without a signed licensing agreement, is hereby granted, provided that the above copyright notice, this paragraph and the following two paragraphs appear in all copies, modifications, and distributions. Contact The Office of Technology Licensing, UC Berkeley, 2150 Shattuck Avenue, Suite 510, Berkeley, CA 94720-1620, (510) 643-7201, for commercial licensing opportunities. Created by Nick Moseyko, Department of Plant and Microbial Biology, University of California, Berkeley.

IN NO EVENT SHALL REGENTS BE LIABLE TO ANY PARTY FOR DIRECT, INDIRECT, SPECIAL, INCIDENTAL, OR CONSEQUENTIAL DAMAGES, INCLUDING LOST PROFITS, ARISING OUT OF THE USE OF THIS SOFTWARE AND ITS DOCUMENTATION, EVEN IF REGENTS HAS BEEN ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.

REGENTS SPECIFICALLY DISCLAIMS ANY WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE. THE SOFTWARE AND ACCOMPANYING DOCUMENTATION, IF ANY, PROVIDED HEREUNDER IS PROVIDED "AS IS". REGENTS HAS NO OBLIGATION TO PROVIDE MAINTENANCE, SUPPORT, UPDATES, ENHANCEMENTS, OR MODIFICATIONS.


1. INTRODUCTION
VIZARD is a Java program created at the University of California, Berkeley, to facilitate analysis of Affymetrix Arabidopsis GeneChip® data. It includes several integrated tools for filtering, sorting, clustering and visualization of gene expression data as well as tools for discovery of regulatory motifs in upstream sequences. VIZARD also includes annotation and upstream sequence databases for the majority of genes represented on the Affymetrix Arabidopsis GeneChip® array.

2. TERMS OF USE
VIZARD has been made available under the terms of the above SOFTWARE COPYRIGHT NOTICE AND DISCLAIMER. This software contains portions of the JFreeChart version 0.5.6 library, which is available under the terms of the GNU Lesser General Public License (LGPL). A copy of the LGPL is included in this distribution (file license_LGPL.html under the doc directory in the VIZARD installation folder). Binary and source code of the JFreeChart library can be downloaded from the following site: http://www.jfree.org/jfreechart/ as well as can be obtained from the author of the VIZARD program, Nick Moseyko, nmoseyko at stanford.edu (replace at with @), upon request.

3. SYSTEM REQUIREMENTS
VIZARD will run on any Java-enabled platform supporting Java 2 (JRE 1.2.2 and later). If the Java 2 Runtime Environment (JRE) is not included in your distribution, you can download the JRE for your platform from the following web site: http://java.sun.com/

4. DOCUMENTATION
VIZARD documentation is included in the software distribution and can be found in the VIZARD installation folder under the doc directory. It is also available on-line. To access the VIZARD user guide from within the program, click on the Help -> User Guide menu.

6. UPDATES/LATEST VERSION
New releases will be announced here.

7. COMMENTS/SUGGESTIONS
Your comments and suggestions are welcome. Please send e-mail to Nick Moseyko, nmoseyko at stanford.edu (replace at with @).