BrainGraph Editor 1.0 Beta
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BrainGraph Editor 1.0 Beta
Overview
This document describes the BrainGraph Editor 1.0 Beta, which was built by the Laboratory of Neuro Imaging (LONI) and Mouse BIRN.
Short Description
The BrainGraph Editor 1.0 Beta is a JAVA application designed to create taxonomies or hierarchies in order to classify and organize information.
Logos
Figure
Categories and Keywords
Application, tool, viewer, hierarchy, ontology
Longer Overview
The BrainGraph Editor 1.0 Beta is used to create hierarchies out of information entered and classified by a user. This allows for organization and easy visualization and navigation through this type of information. The software can be used to create labels, tags, brief descriptions and metadata which are attached to the nodes in the hierarchy. Hierarchies may be visualized in either a Hyperbolic or Tree view and color may be added as additional information that may aid in visualizing a classification.
The intuitive interface allows a user to drag and drop items much like moving files in a computer explorer window. The resulting information is held in an XML file that may be read in MBAT or SHIVA. These files do not require it, but they may be associated with an atlas volume and visualized using the BrainGraph viewer in MBAT or SHIVA and used to navigate through the atlas volume.
Mouse BIRN Atlasing Toolkit (MBAT - http://cms.loni.ucla.edu/MBAT/) and SHIVA (http://loni.ucla.edu/Software/Software_Detail.jsp?software_id=12) can be used to visualize and navigate through the files created with this tool.
User Manual
To access the user manual for this tool see the BrainGraph Editor 1.0 Beta wiki page at http://www.loni.ucla.edu/twiki/bin/view/MouseBIRN/BrainGraphEditor, or here as a a PDF at the BIRN Web site.
Installation Information
- Make sure Java 1.5 or higher is installed on your computer, if you need to install it, download it from http://java.com/en/
- Place the BrainGraphEditor-1.0.jar file in a desired location on your computer
- To run the program, double click the BrainGraphEditor-1.0.jar file
- If you wish to have the program on your desktop, create a shortcut that points to the .jar file.
References for the Software
N/A
Citations and Acknowledgements to Include
Please acknowledge the Laboratory of Neuro Imaging (LONI), UCLA and Mouse BIRN.
Contributors/Authors
The BrainGraph Editor was created by Arthur Toga, Heng Yuan, Allan MacKenzie-Graham, Seth Ruffins, Daren Lee, Amanda Hammond, David Shattuck, Queenie Ng, Steve Anderson, and Jyl Boline.
Technical Contacts
Daren Lee (daren.lee@loni.ucla.edu)
Acknowledgements and Fundings Sciences
This project is supported by U24 RR021760 funded by the National Center for Research Resources (NCRR) at the National Institutes of Health (NIH).
License
The Biomedical Informatics Research Network is committed to an open source policy. In every case of tool development, BIRN developers will produce open source software tools and these will be made available without restrictions. Data will also be openly shared and made available with no restrictions other than subject confidentiality.
BIRN License
Version 1.0, October 2005
This license is between the user (you) and the copyright holders.
The license granted in this Agreement includes without limitation the right to (i) incorporate the software into other proprietary programs (subject to any restrictions applicable to such programs), (ii) add your own copyright statement to your modifications of the software, and (iii) provide additional or different license terms and conditions in your sublicenses of modifications of the software; provided that your use, reproduction and distribution of such modifications otherwise complies with the conditions stated in this Agreement.
- Redistribution and use, with or without modification, must retain the author’s(s’) copyright notice(s) as documented in the source code. Redistributions in binary code must reproduce the author’s(s’) copyright notice(s) as documented in the source code. This list of conditions, the disclaimer in the documentation and/or other materials provided with the distribution must also be retained or reproduced.
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- The software has been designed for research purposes only and has not been approved for clinical use. It has not been reviewed or approved by the Food and Drug Administration or by any other agency. You acknowledge and agree that clinical applications are neither recommended nor advised.
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