
Adjustments under the mode tab
. . .
Most of these will be fine as the default values. Averaging is the most important thing to adjust.
512*512 pixels is good for most imaging, choose other pixel sizes in the "image size" sub-panel
Under Speed, the default scan speed (when not zoomed in) is 9. Reducing the scan speed can improve
a noisy image; faster scan speeds are used to find regions of interest (like during the Fast XY function)
or when photobleaching of the sample is a concern.
Under Pixel Depth, Scan Direction & Scan Average, select your images to be 8 bit (256 gray levels) or
12 bit (4096 gray levels). Select the Scan Direction to be unidirectional or bidirectional. Unidirectional is
typically used, bidirectional scanning can be handy in live imaging since it cuts the scan time in half (but
may require phase adjustment).
To set the averaging for your final image, choose between line averaging, using the mean intensity
of 1,2,4,8, or 16 scans.
The amount of averaging necessary to obtain a good image depends on the signal to noise ratio of
your sample image. Low contrast images will require more averaging but be aware that this could
cause photobleaching. You can determine the amount of averaging necessary to yield the best image
of your sample empirically. As a rough guide, averaging should be set to 100th the gain value, meaning
most samples will require averaging of 4 or 8.
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