Cytoscape
Cytoscape is an open source software platform for visualizing complex networks and integrating these with any type of attribute data. It provides a lot of features for network analysis and visualization.
network-analysis
data-visualization
graph-theory
Cytoscape: Open Source Network Analysis Platform
Cytoscape is an open source software platform for visualizing complex networks and integrating these with any type of attribute data. It provides a lot of features for network analysis and visualization.
What is Cytoscape?
Cytoscape is an open source software platform for visualizing complex networks and integrating these with any type of attribute data. It allows researchers to visualize molecular interaction networks and biological pathways, gene regulation networks, and social networks. Some key features of Cytoscape include:
- Interactive visualizations with support for layouts, zooming, labeling, coloring
- Analysis tools for network clustering, enrichment, filtering
- Integration of node/edge/network data and attributes
- Customizable appearance with themes and visual styles
- Extensible via apps and plugins
- Scripting and automation options
- Export network images, data tables, and files
- Collaboration features to share networks with other users
Cytoscape helps researchers gain insights into the organization and dynamics of molecular interaction networks by integrating experimental data with annotation data, analyzing networks, and allowing interactive visual exploration. Its open architecture allows developers to extend and customize its functionality for specific research needs.
Cytoscape Features
Features
- Network visualization
- Analysis and statistics
- Integration with gene expression data
- Customizable layouts
- Plugins and app store
Pricing
- Open Source
Pros
Open source and free
Large user community
Powerful network analysis tools
Highly customizable and extensible
Cons
Steep learning curve
Can be slow with large networks
Limited native support for some file formats
Official Links
The Best Cytoscape Alternatives
Top Science & Research and Bioinformatics and other similar apps like Cytoscape
Here are some alternatives to Cytoscape:
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