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BioMaze web sites
 The involved research unities
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Visual BioMaze (VBM) is the visualization framework of the BioMaze project. Although it was
developed under BioMaze, the visualization framework can be used separately. The aim of the Visual BioMaze
project is to provide a generic graph visualization tool, i.e., a framework able to show any kind of graphs,
having any kind of associated graphical representation and any kind of graph layout algorithms.
When a graph has to be shown, the visualization framework has to use two important parameters: the representation model and the graph layout algorithm. We call representation model the graphical semantics used to represent the data embedded in graph, i.e., the graphics associated to each type of node and each type of arc. The graph layout algorithms will compute the position of each node of the graph. A tool which aims to provide generic viewer of graphs has to respond to two fundamental specifications: it has to be able to associate each type of node with a specific graphical representation and it has to be able to load dynamically graph layout algorithm. The Visual BioMaze framework fulfills these two requirements. As a consequence, the Visual BioMaze tool can cope with any kind of graph independently of the its semantics and the user can choose both a suited representation model and a suited graph layout algorithm. With respect to the BioMaze project, this means that VBM can cope with any kind of biochemical graphs and it is able to represent them in the same drawing. An example of a network composed of a signal transduction part and a metabolic part arrives when a liver cell receives the signal that the sugar rate increases in the blood (transduction) and its response in which the insulin acts (metabolic pathway). Since users write a query in BioMaze which retreives such a graph, the VBM framework is able to represent these two kind of biochemical networks in the same drawing. Such a result is not available yet in other biochemical tools.
Download the VBM framework via the update site : http://cs.ulb.ac.be/research/biomaze/update
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(16/06/05) Visual BioMaze 1.2.1 for Eclipse 3.1 RC2 is released !
Skhiri dit Gabouje Sabri (VBM project Manager)
The new Visual BioMaze 1.2.1 release is now available. This new version was designed to be used with the new Eclipse generation, the 3.1 family.
In addition, new features like Color Algorithms allow user to colour a specific set of nodes or arcs in order to outline a particular path or subgraph of the
graph to be visualised. Users will find more information in the updated tutorial (version 2.0).
For any information contact the development coordinator: Skhiri dit Gabouje Sabri [sskhirid@ulb.ac.be]
(23/05/05) Visual BioMaze 1.1.13 beta is released !
Skhiri dit Gabouje Sabri (VBM project Manager)
The new Visual BioMaze release is now available. The version 1.1.13 encloses new features such as Zoom in/out and new graphical constraints XML Files.
Some important bugs have also been corrected.
For any information contact the development coordinator: Skhiri dit Gabouje Sabri [sskhirid@ulb.ac.be]
(17/02/05) Visual BioMaze 1.1.12 is available !
Skhiri dit Gabouje Sabri (VBM project Manager)
The new Visual BioMaze release is now available. The version 1.1.6 comes with a significant amount of improvements. Now, the configuration directory VBMConfig is not required anymore, the system manages its configuration. We have also implanted the notion of style which simplify the manipulation of the different parameters of the framework. Further, we have developed tools which aim to assist user in the development of new contributions.
For any information contact the development coordinator: Skhiri dit Gabouje Sabri [sskhirid@ulb.ac.be]
(24/01/05) Visual BioMaze 1.1.3 beta is available !
Skhiri dit Gabouje Sabri (VBM project Manager)
The first public beta test release of the Visual Visual BioMaze is now available. The generic viewer of graph can be now used in order to visualize biochemical networks extracted from the aMAZE database with the Snow system.
More information about the Visual BioMaze project ...
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