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Cytoscape - Cytoscape Official Web Site
SIREN.io - Siren is an investigative intelligence platform.
Polinode - Polinode is a tool that makes it easy to perform powerful network analysis.
DataWalk - DataWalk is a software platform to connect numerous large data sets, both external and internal, into a single repository for fast visual analysis.
Gephi - Gephi is an open-source software for visualizing and analyzing large networks graphs.
Netglub - Netglub, the really open source information gathering solution.