I'd like to make a web application which is able to automatically generate graphs / networks. For instance I'd like to visualize gene expression data stored in a relational database. Nodes would consist for instance of chemicals (ie chemical(s) used in the experimental condition), gene groups and genes. Edges between gene groups or between chemicals and gene groups would be weighted by correlation.
Some demands for the graph would be: - Interactivity with the graph: dragging of nodes, clicking on nodes for more information, collapsing neighbour nodes, adjusting visual style. - Support for potentially large networks (5000+ elements (nodes + edges) ) - must be run inside a browser (java applets are allowed)
Which existing tools/frameworks are suitable for above situation? And what are the pros and cons of each tool?
I'm already aware of Cytoscape Web, Seadragon plugin for Gephi (which isnt entirely web based), and jSquid. Cytoscape Web seems the best solution at the moment, although it is said performance can get quite slow on large networks.
Does anyone know any other tools I can use to built upon or implement for creating webbased graph visualisation?