3DHISTECH Pannoramic SCAN II User Manual page 60

Pannoramic SCAN II 2.2.0 User's Guide
Z-Stack: For Extended focus and Z-Stack scanning methods, you can determine the desired
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number of focus levels with the Levels selection box. The current focus value is the initial
level. If you set 5 for example, then the initial level, plus four (two focus levels above and
below the FOVs) are captured. Therefore, it is advised to choose an odd number for the focus
levels. Separate layers are created and stored this way, and can be opened with Viewer
applications. The Z-Stack slide contains the extended focus layers.
Step size determines the spacing between focus levels. One step is around 0.2 µm. Default
settings are: Levels: 7; Step size: 5.
The number of iterations the Deconvolution algorithm is run can be determined in the
Iteration number for deconvolution: value box.
NOTE: The purpose of deconvolution is to produce a sharper image, but the use of a
deconvolution algorithm can significantly increase the time that takes to create a digital slide.
Scan Settings
Includes the Stop and go scanning mode by which the slide tray stands still during recording the FOV,
then it moves on so that the scanner can record the next FOV.
Use ColorMatrix: Select an applicable preset color profile to be used for Brightfield scanning from the
drop-down menu. Settings according to the profile has effect on the color set, color temperature, and
gamma value of the scanned image.
Separate color matrix can be defined and used for each profile and scanning.
Preset profiles are the following:
Calibrated Linear: Color scheme is defined by calibration (Gamma value is not included)
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sRGB standard: Color scheme is defined by calibration (standard Gamma value -2.2- is
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applied)
sRGB standard microscope-like: Color scheme is defined by calibration (standard Gamma
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value / White Point: D50)
Legacy: a Color scheme calibrated for the previous software version is applied
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Custom: Color profile set in Service is applicable if needed.
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January 24, 2020 - Rev. 2 3DHISTECH Ltd.
5.1.1 Profile Settings Panel
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