Semantic Network Summary Parameter Tutorial

Outline

This tutorial will guide a user through how to use and manipulate the parameters associated with the Semantic Network Summary plugin using the Cytoscape session file provided. See the Semantic Summary Basic Tutorial for an introduction to using the Semantic Network Summary.

Pre-requisites -

• Cytoscape >= 2.7.0 must be installed

• The Semantic Network Summary plugin must be in the Cytoscape-v2.7.x/plugins folder
• Download the test data

Go to this page to download the plugin and test data

Instructions

Version 0.5 or newer

1. Open Cytoscape

2. Open the provided sample data file (File / Open / select the file AlzheimerEM.cys)

3. Be careful not to change the set of selected nodes for the network titled "EM1_Enrichment Map" as this will change the results that you will get.

The example network with the correct set of nodes selected:

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