15. Cytoscape Web Browser¶
Cytoscape includes a simple web browser that can be used for viewing web sites from within Cytoscape. It is also used by Cytoscape apps, link outs, displaying the user manual, and displaying interactive tutorials. You can bring up a browser window by selecting Tools → Open web page, which will bring up the initial Starting Cytoscape Web Browser dialog. It provides a field to type in a web site address and a checkbox to indicate whether the browser window should be opened in the Cytoscape Results Panel.
You can also access the web browser by clicking on the Cytoscape Web Browser icon in the tool bar, which will bring up the main Cytoscape Web Browser with a landing page (see screenshot below) with links to various resources like this manual, tutorials, the Cytoscape website and more.
15.1. Cytoscape Web Browser Window¶
The main Cytoscape Web Browser window provides a rudimentary browsing interface, with forward/back buttons, a text field to enter a new URL, and a Go button to move to the new page. In addition, there three context menus:
- Selected text: The selected text menu has just one item, Copy, which copies the selected text.
- Link: Using the link menu, users can copy the link location, open the link in a new window or the computer’s native browser, or open the link in a new tab. They can also use this to download the link target to a file.
- Other If the cursor is not over a link, and no text is selected, the default menu is shown. Using the default menu, users can close their browser or reload the page.
15.2. Cytoscape Web Browser in Results Panel¶
In addition to being able to open web pages as a separate window, a web page may also be opened in the results panel. This provides many of the same functions as the browser window except that the interface to go forward and backwards is gone, and you can’t open links in different tabs.
15.3. Why Cytoscape Web Browser?¶