Quick Analysis Tab

Quick Analysis ROIs are ROIs drawn over top of previously collected image data still in the live display to take quick measurements from the image data. It provides the maximum, minimum, average, and standard deviation of the image data enclosed by its scanfields at the cross-section with the current viewport’s current z position as determined by the display slider.

This is commonly used for alignments / microscope characterizations but is available also as a standalone, simple, fast image analysis tool.

Keyboard Shortcuts

Shortcut	Description
a	Add an ROI
shift + s	Load ROI Group for quick analysis
shift + o	Save ROI Group for quick analysis

Quick Analysis ROIs

Table Column	Description
Save ROI Group	Saves the current quick analysis ROI Group to a file for reuse at a later time by loading.
Load ROI Group	loads a previously saved ROI group to be used for quick analysis. Can get any ROI group that uses rotated rectangle scanfields.
Clear ROI Group	Clears the quick analysis ROI Group of
ROI parameters table	Name: Name of the ROI Enable: Whether to use the ROI for quick analysis Display: Whether to display the ROI in the viewport Discrete: Whether the analysis should occur only at defined scanfields (checked) or also at depths between defined scanfields (unchecked)
Analysis Table	Displays the mean, maximum, minimum, and standard deviation of the pixel values contained within the ROI at the slice at depth of the current z in the selected viewport.
Channel dropdown	The channel of the image data to use for the analysis

Quick Analysis Scanfields

Table Column	Description
Scanfield Parameters Table	Z [µm]: The depth where the scanfield was defined in sample relative coordinates Center X [°]: The x-component of position of the centroid of the scanfield Center Y [°]: The y-component of position of the centroid of the scanfield in the reference coordinate system (for linear scanning) or the scanner coordinate system (for resonant scanning) Width [°]: The x-component of size of the scanfield in the reference coordinate system (for linear scanning) or the scanner coordinate system (for resonant scanning) Height [°]: The y-component of size of the scanfield in the reference coordinate system (for linear scanning) or the scanner coordinate system (for resonant scanning)
Display units	The units that the data in the table are displayed in. Choices are optical degrees [°], microns [µm] or pixels.
Add Scanfield at Z	Adds a scanfield to the selected ROI at the current Z of the viewport. Note optical degrees can differ in rotation and scaline depending on the coordinate space they are defined in. When the imaging scanner is a linear scanner (galvo-galvo), the parameters are given in the reference coordinate system. When the imaging scanner is a resonant scanner, the parameters are given in the scanner coordinate system.