Cytoscape 2.x is the result of several years of coding effort by many people, all with different visions of how to design systems. Unfortunately, all of this work was done without explicit design guidelines or standards. As a result the core code has become increasingly tightly coupled and interdependent, making it very hard to maintain and improve. Some of the problems with Cytoscape 2.x include:

To address these problems we’ve introduced a few new technologies, produced a new API, and have substantially refactored Cytoscape.

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Cytoscape_3/AppDeveloper/LessonsFrom2x (last edited 2012-05-10 21:42:56 by AlexPico)

Funding for Cytoscape is provided by a federal grant from the U.S. National Institute of General Medical Sciences (NIGMS) of the Na tional Institutes of Health (NIH) under award number GM070743-01. Corporate funding is provided through a contract from Unilever PLC.

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