What is cytoscape
Cytoscape is an open source
software platform for visualizing molecular
interaction networks and biological pathways and integrating these
networks with annotations, gene expression profiles and other state
data. Although Cytoscape was originally designed for biological
research, now it is a general platform for complex network analysis
and visualization. Cytoscape core distribution provides a basic set
of features for data integration, analysis, and visualization.
Additional features are available as Apps (formerly called Plugins).
Apps are available for network and molecular profiling analyses,
new layouts, additional file format support, scripting, and
connection with databases. They may be developed by anyone using
the Cytoscape open API based on Java™ technology and App
community development is encouraged. Most of the Apps are freely
available from Cytoscape App Store.
How to install cytoscape
Simple cytoscape usage
A toy data (saved in
Dean Vice dean1
Dean Vice dean2
Vice dean1 DirectorA
Vice dean2 DirectorB
Vice dean1 DirectorC
Vice dean1 DirectorD
The toy network
The video tutorial to show how to use
cytoscape to transfer the text
into a network.
More cytoscape operations
Node searching, adding, deletion, selection and attribute chaning
- Files needed
- The video tutorial