Cytoscape: There is actually both a desktop version as well as a javascript version for developers (see cytoscape.js). ![]() The main advantage of NodeXL though is neither in its visualization or analysis functionality but rather in it's data collection - it interfaces with the Twitter API nicely for example and many of the use cases for NodeXL involve the visualization and analysis of social media data in my experience It also interfaces directly with the SNAP library for analysis which gives it access to a nice set of efficient algorithms for metric calculations. It doesn't have all of the flexibility of Gephi in terms of visualization but can produce some quality visualizations.
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