Using the Multiple Image Viewer
The Multiple Image Viewer allows you to explore the images in greater detail. You can zoom in, zoom out, and pan across images as well as control how the images are displayed. You can compare up to three images at a time in the Multiple Image Viewer with the Allen Reference Atlas, which annotates the areas of the brain.
The Multiple Image Viewer consists of several areas, as shown in the screen shot below:
- The Image Selection area displays a selectable list of the available image series and indicates which one is currently selected.
- The Image Pane toolbar controls the view of each image.
- The Allen Reference Atlas pane displays the annotated brain slice from the Allen Reference Atlas that most closely resembles the selected mouse brain slice.
- The Brain Slice Navigator displays the relative position in the brain from where the ISH slice was dissected.
- Select the "Synchronize Atlas with Selected Series" check box so that as you select an image pane the Allen Reference Atlas updates automatically to the corresponding reference atlas view.
- The Image Series Preview area displays all the images for the selected image series.
- The ISH Image Panes display the most currently selected thumbnail at the specified zoom level.
- The Image Pane navigator displays the current area within the slice you are viewing.
The Multiple Image Viewer opens the first image of each selected image series by default. The number of image panes is dependent on the number of images series that you selected, with a maximum of three series possible for each session. The first image pane defaults to the Allen Reference Atlas. The other three Image Panes contain the first image from each of the other image series that you selected. You can close any of these panes at any time.
Note: Only four image panes can be viewed at one time, and the Allen Reference Atlas is always displayed in the first pane. If you want to view more than four image panes, you need to open another Multiple Image Viewer window with additional image series selected. Alternatively, you can double-click as many thumbnail images as you want from the Image Series Preview Pane. Each image opens in its own image viewer tool window.
Using the image toolbar
Each selected Image Pane contains a toolbar that lets you control how you view each image. The toolbar includes tools such as print, zoom, pan, image controls, and gene expression filter.
Buttons
| Button | Function |
|---|---|
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Zoom in on selected area. |
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Zoom out of selected area. |
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Adjust image to selected magnification. |
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Pan image left. |
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Pan image up. |
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Pan image down. |
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Pan image right. |
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Reset image to default state. |
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Access image control settings (see "Using the image controls"). |
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Turn the image expression mask on or off (see Using the Gene Expression Filter). |
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Access image metadata. |
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Print the image. |
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Switch the image pane to the small pane view. |
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Switch the image pane to the medium pane view. |
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Switch the image pane to the large pane view. |
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Display two versions of the image at the same time: an ISH image in the image pane and an expression view of the same image directly below the image pane. Click this button again to hide the expression image. |
Zooming and panning all Image Panes simultaneously
he keyboard keys described in the table below allow you to simultaneously pan and zoom the image displayed in each of the Image Panes in the Multiple Image Viewer. Panning and zooming is synchronized for all Image Panes, including the pane that contains the Allen Reference Atlas.
| Keyboard key | Function |
|---|---|
| + or - | Zoom in or out |
| Arrow keys | Pan left and right, up and down |
| R | Reset all images |
Using the image controls
Each image pane contains the following controls for adjusting the opacity and color of the selected image:
- Opacity determines to what degree of transparency an image is rendered on the screen. The closer the slider gets to 0, the more transparent the image appears. The closer the image gets to 100, the less transparent the image appears.
- Hue adjusts the gradation of the image colors from orange to red.
- Saturation adjusts the degree of which colors of the same wavelength are differentiated from one another on the basis of purity. A color that is 100 percent saturated contains no white (monochromatic colors). A color that has 0 percent saturation is "pure" white.
- Brightness adjusts the total amount of light in the color of the image. Zero brightness is black and 100% brightness is white, where intermediate values are light or dark colors.
Overlaying images
To create a composite (overlay) image, drag the title bar of an image pane until the image snaps on top of another image pane. Because each image pane contains color controls, you can adjust the images individually in order to allow the underlying background image to show through for better comparison.
