# Network Visualization¶

• surface: surface file
• alpha: degree of opaque
• display: mode of display
• node: node file defined as csv table. All columns are optional except for ‘x’, ‘y’ and ‘z’.

For example:

 x     y    z  size  module   r   g   b   label
-1 , 20 , 20 , 4 , module1 , 5 , 5 , 5 , node1
-10 , 22 , 20 , 4 , module1 , 5 , 5 , 5 , node2
12 , 20 , 20 , 4 , module2 , 5 , 5 , 5 , node3

• show node labels: check to show labels defined in input node file.
• same size: use same size for all node, uncheck to use user defined size in input node file.
• user defined node color: use color defined in input node file.
• same node color: use same color for all node.
• module color: use different color for each module. Modules are defined in input node file.
• edge: edge matrix for input file, the number of rows and columns should be the same as input file.
• display edges: display or not edges.
• hide node without edge: select not to show nodes without edge
• thickness: relative thickness for all edges
• adjust edge color: use different color for positive and negative edge.
• threshold: an expression that compatible with matlab syntax to filter out unwanted edges in edge matrix.
• use summed weight as node radius: sum up node’s degree and define node size.
• threshold: nodes with degree smaller than the threshold will not be shown.
• Buttons:
• S: Save parameters of the current panel to a *.mat file. The *.mat can be further loaded for the panel or be used in a script processing.
• L: Load parameters from *.mat for the current panel.
• ?: Help information.