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Introduction

Cytoscape is an open source bioinformatics software platform for visualizing molecular interaction networks and integrating these interactions with gene expression profiles and other state data.

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Using Cytoscape

User Manual: Development draft
Exampledata sets to use in Cytoscape
Publications about Cytoscape
Presentations about Cytoscape
Recipes: Use case based plugin tutorials
Other network analysis links

Cytoscape 3 User Documents

User Manual: 3.0.0 development draft

Developing Cytoscape

Cytoscape 2.x Development

Participate in Cytoscape Development
Building_Cytoscape
Plugin Developer's Documents
Future_Cytoscape_Features
RFC_Index: Request for Comment (RFC) Index Page
Core Development Pages
- Newly started Cytoscape 3 documentation
- Outdated Cytoscape 3.0 pages, partly describing the 3.0-development process
- Cytoscape_2.7
- Cytoscape_2.6
- Cytoscape_2.5
- Google Summer of Code 2009: Ideas page for our GSoC application
- CytoscapeRetreat2010
- Hackathon Oct '09
- Mini Retreat Jun '10

Cytoscape 3 Development

Testing Cytoscape

Master Test Plan

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+== Cytoscape 3 User Documents ==

 * [[Cytoscape_3/UserManual|User Manual]]: 3.0.0 development draft