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Cytoscape ( is an open source software platform for visualizing networks and integrating these with any type of attribute data. Although Cytoscape was originally designed for biological research, now it is a general platform for network analysis and visualization. A variety of layout algorithms are available, including cyclic, tree, force-directed, edge-weight, and yFiles Organic layouts. Cytoscape tool can also be added to the Sci2 Tool as a plugin, permitting that the networks generated at Sci2 be visualized in Cystoscape.


To add Database, Cytoscape plugins,


Congressional District Geocoder, and New ISI File Format to Sci2

  1. Download these files that contain additional plugins to add Database, Balloon Graph, Cytoscape, and Congressional District Geocoder, and New ISI File Format plugins to Sci2:
  2. Copy these jar files to the directory /plugins of Sci2directory
  3. Download the file default_menu.xml and copy it to the directory configuration/ under Sci2 directory, replacing the older version of this file. This file specifies where each plugin added will be located at the menu. 
  4. The next time the Sci2 Tool is loaded after this modifications, this additional plugins will appear as new menu items.