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IGB is well known for the high degree of flexibility it offers users in order to fine-tune IGB behavior .
You can change track foreground and background colors, change how gene models are displayed, merge plus and minus tracks into a single track, and much more, set up keyboard shortcuts that control a variety of different IGB functions.
IGB remembers these settings from session to session, but you can also "reset preferences" to defaults.
Also, when you re-launch IGB, it will remember the genome you were looking at previouslyto your needs. IGB allows you to set many of these options in the Preferences.
You can open the Preferences Window in one of two ways:
- Choose File > Preferences or
- Right-click a Track Label and choose Configure
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- Use the Preferences shortcut icon in the Toolbar
It opens a new window with several tabs, including Tracks, Track Defaults, Shortcuts Toolbar, Graphs, Other Options, Plugin Repositories, and Data Sources.Tip:
| Tip |
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To reset Preferences to default values, choose Other Options and click Reset Preferences to |
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Defaults |
Overview
- Tracks
The tab has been redesigned starting with IGB 6.6. Default functions have been moved to Track Defaults tab. This updated panel tab allows active management of many aspects of the tracks. This includes style (colors, font size etc.) , model representation (collapsed, max expand, etc) and a new property for identifying strandedness (color by strand, arrows). All of these changes are immediately applied (unless you set it otherwise). More about Tracks.
- Track Defaults
The new Track Defaults tab allows the user to set IGB to load files with specific colors, labels, font size, etc. based on file type. You can use the IGB defaults or set your own parameters. Simply find the file type you want, add it to the list and then set the style. IGB will then load all new files of that type with those specifications.
- ShortcutsToolbar (NEW!)
IGB allows you to add shortcut icons to the Toolbar, and/or create keyboard shortcuts for the functions you use most often. Simply highlight the function from the list and type the key stroke(s) you wish to use to activate the function. Then click the 'Apply this Shortcut' button to save it. More about Shortcuts.
- Graphs
In the current versions of IGB, this tab allows you to set the following 3 items (shown set to default):
The Heatmap menu gives several color combination choices.
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- Other Options
This tab gives you the opportunity to adjust the appearance of the axises, the colors of ORFs and base residues. It also has the very important (and dangerous) 'Reset all preferences to default' key. More about Other Options.
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This tab can also be accessed by using the Configure button in the Data Access tab of the main window. This is the list of all current servers, including the inactive ones; this is also where you can add new servers. You can also , set up personal synonyms. This is also where you can , and clear the IGB cache , another important function if IGB is behaving oddly. The best description of using this whole panel (data sources, synonyms and cache) can be found in the See Data Sources page and its child pages.