I want to use the Cytoscape App ClusterMaker2 on data from an expression matrix (rows =genes, columns = conditiones). But I think I need an Network to use ClusterMaker2. How can I create a Network out of my matrix? Or is there a way to use ClusterMaker2 on an imported table?
UPDATE: I found really good way to create a Network of my matrix: "you can just read your expression matrix in as a network. Go to File->Import->Network->File... and select the column containing your gene names as the Source column (green circle). Then change all of the other columns to be Source Node Attributes (right-click on the column to bring up the dialog to change the column type). Then import it. You now have a "network" with no edges. You can now create coexpression networks from that, or use the hierarchical clustering algorithms." https://groups.google.com/forum/?fromgroups=#!topic/cytoscape-helpdesk/7l0UlinH1K8