=== What are CytoPanels? ===

'''''CytoPanels''''' are floatable/dockable panels designed to cut down on the number of pop-up windows within Cytoscape and to create a more unified user experience.  These panels used to be called CytoPanel 1, 2, and 3.  From 2.5, they are named based on their functions.  The following screenshot shows the file {{{yeastHighQuality.sif}}} and GO annotations loaded into Cytoscape, performed Force-Directed layout, enable Align and Distribute tools, and then run MCODE plugin for the data sets.  In ''Control Panel'' (at the left-hand side of the screen), the Network Manager, Network Overview, VizMapper, Filters, and Cytoscape Editor have been loaded.  On the bottom of the panel, there is another CytoPanel called ''Tool Panel''.  In the ''Data Panel'', the Attribute Browser has been loaded.  In addition, Result of the analysis by MCODE plugin is shown in ''Result Panel'' (at the right-hand side). 

{{attachment:cytopanel-default_25.png}}

The user can then choose to resize, hide or float CytoPanels. For example, in the screenshot below, the user has chosen to float all panels and toolbar:

{{attachment:cytopanel-float_25.png}}

=== Basic Usage ===

Cytoscape includes four !CytoPanels: '''''Control Panel''''' on the left, '''''Tool Panel''''' on the bottom of ''Control Panel'', '''''Data Panel''''' on the bottom, and '''''Result Panel''''' on the right. By default, ''Control Panel'' and ''Data Panel'' will appear.  ''Result Panel'' may appear, depending on the mix of Cytoscape plugins that you currently have installed.  ''Tool Panel'' will appear when you select the following commands under the ''Layout'' menu: ''Rotate'', ''Scale'', and ''Align and Distribute''.

All panels can be shown or hidden using the View → Show/Hide functions.

{{attachment:cytopanel-menu-items_25.png}}

In addition, !CytoPanels can be floated or docked by selecting the icon at the top right corner of each !CytoPanel. The icon and tooltip will change based on the !CytoPanel state. If the !CytoPanel is docked, clicking on the icon will float the !CytoPanel, as indicated by the “Float Window” tooltip. Alternatively, if the !CytoPanel is floating, clicking on the icon will dock the !CytoPanel, as indicated by the “Dock Window” tooltip.

{{attachment:cytopanel-float-dock-icon.png}}