DEMA: an algorithm to model and layout biomolecular networks with quantitative properties
- DEMA (Distance-bounded Energy-field Minimization Algorithm) is a plugin of Cytoscape for data visualization. By generating a layout according to the network information, data analyst can use the layout to perceive the data relations.
Installing
- Install Cytoscape of version ≥ 3.4.0.
Put the DEMA plugin file in the folder CytoscapeConfiguration\3\apps\installed.
Usage
- Open Cytoscape, import the files, and launch the DEMA plugin. The necessary file is the protein-protein interaction (PPI) network file. By importing the PPI network file, DEAM will show a basic layout. Read the tutorial for details on various available options.
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Test Models