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A travel guide to Cytoscape plugins

2012; Nature Portfolio; Volume: 9; Issue: 11 Linguagem: Inglês

10.1038/nmeth.2212

1548-7105

Rintaro Saito, Michael Smoot, Keiichiro Ono, Johannes Ruscheinski, Pengliang Wang, Samad Lotia, Alexander R. Pico, Gary D. Bader, Trey Ideker,

Genomics and Phylogenetic Studies

This Perspective discusses the registered and publicly available set of Cytoscape plugins to guide potential users to suitable tools. Cytoscape is open-source software for integration, visualization and analysis of biological networks. It can be extended through Cytoscape plugins, enabling a broad community of scientists to contribute useful features. This growth has occurred organically through the independent efforts of diverse authors, yielding a powerful but heterogeneous set of tools. We present a travel guide to the world of plugins, covering the 152 publicly available plugins for Cytoscape 2.5–2.8. We also describe ongoing efforts to distribute, organize and maintain the quality of the collection.