View settings for the Side Panel
The Side Panel is shown to the right of
all views that are opened in CLC Genomics Workbench. By using the settings in
the Side Panel you can specify how the layout and contents of
the view. Figure 4.8 is an example of
the Side Panel of a sequence view.
Figure 4.8: The Side Panel of a sequence contains several groups:
Sequence layout, Annotation types, Annotation layout, etc. Several
of these groups are present in more views. E.g. Sequence layout is also in the Side Panel of alignment views.
By clicking the black triangles or the corresponding headings, the groups can be expanded or collapsed. An example is shown in figure 4.9 where the Sequence layout is expanded.
Figure 4.9: The Sequence layout is expanded.
The content of the groups is described in the sections where the functionality is explained. E.g. Sequence Layout for sequences is described in Sequence layout in Side Panel.
When you have adjusted a view of e.g. a sequence, your settings in the Side Panel can be saved. When you open other sequences, which you want to display in a similar way, the saved settings can be applied. The options for saving and applying are available in the top of the Side Panel (see figure 4.10).
Figure 4.10: At the top of the Side Panel you can: Expand all
groups, Collapse all preferences, Dock/Undock preferences, Help, and
Save/Restore preferences.
To save and apply the saved settings, click (
)
seen in figure 4.10. This opens a menu,
where the following options are available:
- Save Settings. This brings up a dialog as shown in figure 4.11 where you can enter a name for your settings. Furthermore, by clicking the checkbox Always apply these settings, you can choose to use these settings every time you open a new view of this type. If you wish to change which settings should be used per default, open the Preferences dialog (see Default view preferences).
- Delete Settings. Opens a dialog to select which of the saved settings to delete.
- Apply Saved Settings. This is a submenu containing the settings that you have previously saved. By clicking one of the settings, they will be applied to the current view. You will also see a number of pre-defined view settings in this submenu. They are meant to be examples of how to use the Side Panel and provide quick ways of adjusting the view to common usages. At the bottom of the list of settings you will see CLC Standard Settings which represent the way the program was set up, when you first launched it.
Figure 4.11: The save settings dialog.
Figure 4.12: Applying saved settings.
The settings are specific to the type of view. Hence, when you save settings of a circular view, they will not be available if you open the sequence in a linear view.
If you wish to export the settings that you have saved, this can be done in the Preferences dialog under the View tab (see Import and export Side Panel settings).
The remaining icons of figure 4.10 are used to; Expand all groups, Collapse all groups, and Dock/Undock Side Panel. Dock/Undock Side Panel is to make the Side Panel "floating" (see Floating Side Panel).
Subsections