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| The Social Network Cytoscape app creates a visual summary of how individuals are connected. Biological networks can be visualized and analyzed using Cytoscape. Often researchers want to go beyond the network of proteins or genes and also look at the inter-connectedness between colleagues and institutions. Who tends to publish together? What institutions are most collaborative? Are there inter-disciplinary connections in my institution? The app addresses these questions by building co-publication networks where the nodes represent authors and edges represent the publications that different authors share. |
Social Network App Download Page
Contents
Brief Description
The Social Network Cytoscape app creates a visual summary of how individuals are connected. Biological networks can be visualized and analyzed using Cytoscape. Often researchers want to go beyond the network of proteins or genes and also look at the inter-connectedness between colleagues and institutions. Who tends to publish together? What institutions are most collaborative? Are there inter-disciplinary connections in my institution? The app addresses these questions by building co-publication networks where the nodes represent authors and edges represent the publications that different authors share.
Installation
The Social Network App only runs on the latest version of Cytoscape (Cytoscape 3.x). Instructions for downloading and installing Cytoscape 3.x can be found HERE.
Once Cytoscape 3.x is installed and running:
Download this jar & store it in a local folder: social-network-app-1.0.jar
Go to the menu bar and click on Apps.
Go to App Manager. The App Manager enables you to install the app in one of two ways:
Search: Here you can install the app through the Cytoscape app store. To do this simply search for Social Network App or use a similar descriptive query. A list of relevant apps will be presented to you. Once you've located the app, select it and click Install.
Install from file : Here you can install the app locally. Since the Cytoscape App Store currently doesn't hold the Social Network App this is the option that we will venture to use in this tutorial.
Click Install from File
Locate the locally stored app file (i.e. social-network-app.jar) and select it.
Voila! The app should now be installed.
Launching The App
In Cytoscape 3.x:
Click on Apps
Scroll over to Social Network
Click on View Panel
A new panel called Social Network will pop up on the left side of Cytoscape.
Getting Started