Image Display and Channel Selection (Galvo)

The first four tabs located below the image display window are used to swap between imaging channels. Selecting either “Channel 1, 2, 3 and 4” bring up the images from PMTs 1-4 respectively. By clicking on “all channels” you can see all 4 channels simultaneously. Channels are enabled or disabled from the channels tab.
When scanning is initiated the image will be displayed in the image display window at its native resolution. You can enlarge the image simply by clicking in the display area. To zoom back out hold the shift key and click again.

Please note that this is a digital zoom, not optical zoom. To optically zoom please refer to the zoom controls in the 2D Frame Tab

Display Window
Display Window

The blue bar in the lower right indicates the current progression through the number of frames to acquire (set in the 2D Frame tab) and will loop indefinitely if in Focus Mode).

Grid Overlay

A grid can be overlaid over the image display window. Adjusting the slider indicated below can adjust the number of cells included in the grid. This can be adjusted from 1×1 (single cell with no additional grid overlay shown, such as in the above image) to a 20×20 grid overlay. The size of each cell will be calculated from the field of view settings and will be displayed next to the grid slider control.

Grid Overlay Control
Grid Overlay Control (2×2 Grid Overlay)
AGrid Overlay UI SliderThe slider can be used to adjust grid overlay from 1x1 cells to 20x20 cells
BGrid Cell SizeCell size is calculated from field of view settings and displayed
CGrid OverlayGrid is overlaid on current image display window

An example of a grid overlay with 6×6 cells can be seen below.

Grid Overlay 6x6
Grid Overlay 6×6

The grid overlay feature is also available in the position save module and can be used to help align the current field of view with a reference image for cases where the Red/Blue overlay feature isn’t enough. For more information on using the Position Save Module please see the Position Save Article.

Channel Histogram

The histogram tab at the bottom of the imaging plane is used to adjust the displayed image. Each channel has its own tab for independent adjustments.

Display settings and histogram (Galvo)
Display settings and histogram (Galvo)
ADisplay PaletteThis drop-down menu gives you the option of choosing from the following display palettes;

  • Standard - displays the image with no display palette, just greyscale.

  • High Clipping Red – Displays the image with saturated pixels showing up red on the display.

  • Low Clipping Blue – Displays the image with low saturated pixels displaying as blue.

  • High and low Clipping – Combines both the high clipping red and low clipping blue palettes

BAvg TypeAllows you to display the image with a moving average, group average or no average applied, useful for imaging weak signals.
CAvg OfDefines the number of frames to be averaged if Avg Type is set.
Dauto scaleThe auto scale feature automatically adjusts the image display range based on the minimum and maximum greyscale values that are present in the image. To manually control the display range, disable Auto Scale and use the two sliders or the two numeric controls
EHistogramThe histogram represents the distribution of grey levels in the image.
FChannel SelectSwitch between histograms for each channel.

Please note: These settings only affect the displayed image within SciScan. Images recorded to hard drive remain unaltered.


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