Geometric Tutorial



  1. Go to the Cytoscape menu and select: Plugins → Random Network Plugin → Generate Random Network


  2. Select Geometric Model check box and select the "Next" button.



  3. The variables are explained below:


    • Number of Nodes:  The number of nodes in the random network.  The number here has to be a natural number greater than 0.
    • Radius: The radius defines the distance between two points that results in a edge being drawn between the corresponding nodes.
    • Dimension: The dimensions of the unit area (square, cube, etc.) in which points (nodes) are randomly created.
    • Undirected: If this check-box is selected then the resulting Cytoscape network may only have a single edge between any two nodes.


  4. Below is the resulting network from the values given above.




    5.     The resulting network has 100 nodes and 222 edge.

Images










N = 1000
E = 931
Dimension = 2
r = 0.05
Components = 343

























N = 1000
E = 2042
Dimension = 2
r = 0.075
Components = 54
























N = 1000
E = 2601
Dimension = 2
r = 0.082
Components = 25























N = 1000
E = 3709
Dimension = 2
r = 0.1
Components = 2



























N = 1000
E = 14,632
Dimension = 2
r = 0.2
Components = 1














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