Hiding and deleting graphs
Hide graphs to remove them from the display without deleting them from memory. Hidden graphs can be restored later. Delete graphs to permanently remove them from the viewer and from memory.
For a graph attached to a tier, you can hide it in the same way you hide an annotation tier. Right-click on the label tier and select Hide from the menu. Floating graphs must be attached to a tier before they can be hidden.
To delete one or more tiers:
- Select the tier label.
- Right click and select "Delete Selected Tiers".
To delete one or more graphs:
- Select the graph or graphs.
- Open the Graph Adjuster tab. Click the Delete button.
To delete all graphs currently displayed on this chromosome:
- Choose File menu > Clear graphs.
To delete all graphs currently displayed on all chromosomes:
- Choose the Whole Genome view
- Choose File menu > Clear graphs.
Advanced graph manipulations
Controls for the graph features below can be found in the Advanced section of the Graph Adjuster tab.
Graph labeling
You can modify the labels for graphs that are currently selected by checking checkbox options in the Advanced portion of the Graph Adjuster panel.
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An example graph showing both options turned on is shown below:
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Floating graphs
An attached graph appears in its own track, like other annotation types. A floating graph is drawn on top of other tracks with a transparent background. Since a floating graph is not in a track, it has no track handle. Instead, use the graph handle to select the graph, or to drag it to a new location. The graph handle is the colored bar to the left-hand side of the graph.
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You can set default preferences so that graphs load either initially floating or attached as a track. See Setting graph preferences.
Transforming to a non-linear scale
By default, all graphs display in linear scale. If you wish to scale the data in a non-linear way:
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IGB duplicates your graph in a new track and applies the selected scale to the new graph. Your original graph is not deleted. Note that one of the choices of scale is Copy, which makes a copy of the graph without re-scaling it. That can be useful if you want to explore the effects of showing one graph in two graph styles at the same time.
Duplicating graphs
You may want to duplicate a graph to experiment with different graph adjustments without losing adjustments that you have already made.
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- Click the colored bar at the left end of a graph to select it.
- Click the Graph Adjuster tab. In the Advanced section, under the label Transformation select Copy and click Go.
Joining and splitting graphs
It is possible to join two or more graphs into a single annotation track. The two graphs will then have a single track tier label and can be moved and adjusted as a group.
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By selecting the single tier label, here labeled "Experiment A", you can easily set the graph style and data range for all these graphs to be identical.
Graph arithmetic
You may need to compare the relative differences in expression levels between two graphs that represent data that occupy the identical genomic position on the chromosome. For example, a graph of cancerous cells will show what's turned on or off when compared to a graph of normal cells. Results that show significantly more or less activity than a control graph for the same region may indicate an area of interest.
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