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| = What are apps? = | == What are apps? == |
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| = Installing Apps = | == Installing Apps == |
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| = Managing your Installed Apps = | == Managing your Installed Apps == |
What are apps?
Cytoscape's capabilities are not fixed. They can be expanded with apps. Apps are software bundles that extend Cytoscape. They extend Cytoscape in a variety of ways. An app could provide the ability to import data from an online database. Or an app could provide a new method for analyzing networks. Apps are not included when you first install Cytoscape. As described later, you can install apps after you set up Cytoscape. Most apps were made by Cytoscape users like you.
If you're familiar with Cytoscape 2.x, you probably know that extensions to Cytoscape were called plugins. Starting in Cytoscape 3.0, we are calling them apps. Note that Cytoscape 2.x plugins cannot be used in Cytoscape 3.0.
Installing Apps
You can install apps through the App Store or within Cytoscape. In this section, we'll talk about installing apps through Cytoscape. You can learn how to install apps through the App Store here.
To install apps within Cytoscape, first open the App Manager by selecting the Apps menu and choosing App Manager. At the top of the App Manager window, make sure you have the Install from App Store tab selected.
There are three ways you can find apps:
If you know the name of an app you're looking for, enter it in the Search field. The App Manager will list the apps whose names or descriptions match the Search field in the middle panel.
If you have a general idea of what sort of app you're looking for, double-click on the apps by tag folder, then click on one of the tags that interests you. The apps with that tag are listed in the middle panel.
If you're not sure what sort of app you and want to see everything, click the all apps folder. In the middle pane, you will see a list of all the apps.
When you click on an app in the middle panel, the App Manager shows its short description and icon in the right panel. If you want more information about the app, click the View on App Store button on the bottom-right. If you want to go ahead and install the app, click the Install button.
If you've downloaded an app to your computer, you can install it by clicking the Install from File button on the bottom-left.