Brede Toolbox


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brede

Brede Toolbox

"Brede Toolbox" is a neuroinformatics toolbox primarily written in the Matlab language running under matlab 6.0 or later. Its primary purposes are handling, analyzing and visualizing data from functional neuroimaging experiments, - not the original data but rather the summary images (e.g., statistical parametric images) and location data in stereotaxic space. It includes a number of general purpose analysis algorithm, e.g., independent component analysis and non-negative matrix factorization, text and link analysis, probabilistic modeling of activation foci (a la Peter T. Fox's "functional volumes modeling"), visualization of multiple foci, volumes and/or surfaces in a 3-dimensional Corner Cube visualization or visualization with the VRML97 3-dimensional model language.

The Brede Toolbox also contains the Brede Database as XML-files. This includes a brain region taxonomy, a cognitive component taxonomy and information from published scientific articles with Talairach coordinates. These XML-files as well as automatically generated static HTML web-pages with the information from the database rerepresented and analyzed are available from the Brede Database web-pages. The files on this web-site might be more recent than the files distributed in the Brede neuroinformatics toolbox.

The toolbox is presently free for research use: Follow the links below to get to the download directory.

[ Download directory | Lastest version tar.gz | Lastest version .zip | INSTALL | README ]

Finn Årup Nielsen, fn@imm.dtu.dk, 2002, 2009.

brede

Documentation

There is presently a short cookbook available with examples.

Furthermore, many functions have a usage example in the help text. The functions can be browsed from the top function brede.m:

>> helpwin('brede')

There is an overview of the cvs revisions and hyperlinked Matlab headers m2html-generated and mat2html-generated.

Finn Årup Nielsen, fn@imm.dtu.dk, 2002, 2004.

lyngby

Reference

If you use the toolbox in connection with a scientific work please reference it as: The toolbox has been used and is further described in, e.g.,
Finn Årup Nielsen, fn@imm.dtu.dk, 1999, 2002

brede

Legalities

The following applies for the software of the Brede neuroinformatics toolbox:

Copyright © The researchers and professors of the Technical University of Denmark. All Rights Reserved.

Permission to use this Software for educational, research, and non-profit purposes, without fee and without a written agreement, is hereby granted to [ ... ].

Patient care applications are prohibited. Brede has not been evaluated or approved by the United States FDA.

Those desiring to modify or incorporate this Software into commercial products or to use it for commercial purposes should contact the Technology Transfer Office, The Secretariat of Research and Innovation, Technical University of Denmark, Anker Engelundsvej, Building 101 A, DK-2800 Kgs. Lyngby, Denmark. Fax (+45) 45888040.

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

THE SOFTWARE PROVIDED HEREIN IS ON AN "AS IS" BASIS, AND THE TECHNICAL UNIVERSITY OF DENMARK HAS NO OBLIGATION TO PROVIDE MAINTENANCE, SUPPORT, UPDATES, ENHANCEMENTS OR MODIFICATIONS. THE TECHNICAL UNIVERSITY OF DENMARK MAKES NO REPRESENTATIONS AND EXTENDS NO WARRANTIES OF ANY KIND, EITHER IMPLIED OR EXPRESS, INCLUDING - BUT NOT LIMITED TO - THE IMPLIED WARRANTIES OF MERCHANTABILITY OR FITNESS FOR A PARTICULAR PURPOSE, OR THAT THE USE OF THE SOFTWARE WILL NOT INFRINGE ANY PATENT, TRADEMARK OR OTHER RIGHTS.


Finn Årup Nielsen, fn@imm.dtu.dk, 2004

NITRC listed

NITRC

The Brede Toolbox is listed in NITRC.

software HBP THOR Center for Neuroinformatics, Human Brain Project Repository (This server)
THOR THOR Center for Neuroinformatics
ISP Intelligent Signal Processing
IMM Informatics and Mathematical Modelling
DTU Technical University of Denmark

© Technical University of Denmark, 1999, 2002, 2004, 2006, 2008, 2009
http://hendrix.imm.dtu.dk/software/brede/brede.html
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