Getting Started (Installing)

Requirements

• Cytoscape minimum version 3.3
• AutoAnnotate version 1.1
• WordCloud minimum version 3.1.0
• clusterMaker2 minimum version 0.9.5

Installation

Install Cytoscape

• If you don’t have Cytoscape please download and install the latest release from http://www.cytoscape.org/download.php.

Install AutoAnnotate (latest version is 1.1)

• Open Cytoscape
• In the main menu select Apps > App Manager
• In the App Manager select AutoAnnotate in the list of All Apps and click the Install button.
• The WordCloud app will also be installed automatically along with AutoAnnotate

Install clusterMaker2 (optional, but highly recommended)

• In the App Manager select clusterMaker2 in the list of All Apps and click the Install button.

Alternatively AutoAnnotate and clusterMaker2 can be installed from the App Store website.

• AutoAnnotate on the App Store: http://apps.cytoscape.org/apps/autoannotate
• clusterMaker2 on the App Store: http://apps.cytoscape.org/apps/clustermaker2