Large Images
ND Acquisition
M x N - the number of columns and rows (Fields) with an Overlap define the stage area.
Rectangle by 2 corners – two corners of the rectangle have to be defined using the arrow buttons to form the stage area. Preview of the point surroundings is shown after clicking each arrow button.
Rectangle by sides - four sides of the rectangle have to be defined using the arrow buttons to form the stage area.
Rectangle by 3 corners – three corners of the rectangle have to be defined using the arrow buttons to form the stage area.
Convex Envelope – corner points (3 at minimum) have to be defined in the table using . The whole FOV of all points connected by a straight line form the stage area.
Smooth Envelope – corner points (3 at minimum) have to be defined in the table using . The whole FOV of all points connected by a smooth line form the stage area.
Polygon - at least 3 points have to be defined in the table using . Each point (center of FOV) delimits the polygon stage area.
Circle by 3 points – 3 points lying on the circle have to be defined in the table using to form the stage area.
Circle by radius – only radius of a circle has to be defined in the edit box to form the stage area.
To use this wizard for large image acquisition, a motorized XY stage has to be connected.
Start by checking whether to acquire a HDR image (Use HDR).
Check Use Z for Focus Surface if you want to use the focus surface plane during scanning of the large image.
If Capture Multichannel is checked, multichannel capturing (Multi-channel Acquisition) is enabled.
Select whether to save the acquired files (Save file(s) into folder) and specify the location or do not save the files at all (Do not save file(s)).
In the bottom section specify the scanned area. Select its Shape and define it using the buttons while changing the stage position. The acquisition area can be defined in multiple ways:
Note
Some areas enable the user to check Define without Capturing. This function sets the scanned area shape without capturing images of the definition points, therefore no preview images are shown. For example a polygon area can be defined just by moving the XY stage without capturing the image on each coordinate during the definition, thus saving the sample by limiting phototoxity (damage to cells upon excitation light illumination).
Large Image Info bar displays information about the large image being acquired.
At last choose a stitching method in the Acquisition Parameters tab (Stitching via). Blending blends the overlapping image parts and Optimal path computes a contour in places where two overlapping images are least different and then they are stitched copying this contour(see: Methods Used for Stitching Large Images). Precise Stitching (Image Registration) compares the image texture and automatically adjusts the position of images. If there are pixel-shifts between neighboring images, this function will help. Automatic Shading Correction is a crucial feature that allows to scan sufficiently homogeneous images. A “Per Optical Configuration” shading correction must be set beforehand in order for this option to be enabled. Please see Acquire > Shading Correction Panel for further details.
(requires: EDF Module)
(requires: EDF Module)
To use this wizard for EDF image acquisition, a motorized XY stage and motorized Z has to be connected.
The first tab (Acquisition Parameters) holds the same steps like the Scanning Wizard (see Addons > Large Images > Scanning Wizard ).
Stitching options (see Addons > Large Images > Scanning Wizard ) include an option to create a Z-Map (Z-Map Method, see Applications > EDF > Show Z-Map Image). If the Z-map calculation is not necessary for your task, select None to speed up the EDF image acquisition.
Set the EDF Z-range definition (see Z-series Acquisition) in the second tab (Z-Stack Bottom and Top) and click 
Run to start the acquisition.
This wizard simplifies the ND Acquisition process. To utilize the multipoint/Z options, the XY/Z motorized device has to be connected.
Set which dimensions are supposed to be captured. If no dimension is selected, the process behaves like a simple capture using the currently selected optical configuration.
Select whether to save the acquired files (Save file(s) into folder) and specify the location or do not save the files at all (Do not save file(s)).
For more information about the selected dimensions, please see Time-lapse Acquisition for Timelapse, Multi-point Acquisition for Multipoint, Z-series Acquisition for Z-Stack acquisition, and Multi-channel Acquisition for Multichannel acquisition.
This wizard simplifies the ND and large image acquisition. To utilize Z options of the wizard, a Z motorized device has to be connected.
Set which dimensions are supposed to be captured. If no dimension is selected, the process behaves like a simple capture using the currently selected optical configuration.
Select whether to save the acquired files (Save file(s) into folder) and specify the location or do not save the files at all (Do not save file(s)).
For more information about the selected dimensions, please see Time-lapse Acquisition for Time Sequence (Timelapse), Z-series Acquisition for Z-Stack acquisition, and Multi-channel Acquisition for Multichannel acquisition.
In the Define Stage Area for Addon set the shape of the stage area (see Addons > Large Images > Scanning Wizard ) and click Run to start the acquisition.