Running MCODE

MCODE is an extension for Cytoscape and can only be accessed through Cytoscape:

  1. Start Cytoscape.

  2. Import a network or open a Cytoscape session that has one or more networks.

  3. Make sure a network is selected in Cytoscape’s.

  4. Select the menu option Apps > MCODE, which should open MCODE’s New Analysis Dialog.

_images/app_menu.png

  1. Click the Analyze Current Network button.

_images/new_analysis_dialog.png

  1. The main MCODE interface will appear with the results as a tab in the left-hand panel of Cytoscape.

_images/main_panel_results.png