Zeiss Lightsheet Z.1, Operating Manual

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CHAPTER 4 - SYSTEM OPERATION
Carl Zeiss Left Tool Area and Hardware Control Tools Lightsheet Z.1
142 000000-1790-528 02/2013
3.3.17 Processing – Lightsheet Processing
Licensing Instrument
standard  optional LSM ELYRA  Lightsheet Z.1
See full description of tool set for details.
The
Lightsheet processing module allows one to process images that were acquired with the
Lightsheet Z.1 using
Dual Side
illumination and/or with the
Multiview tool
tab.
Files need to be saved prior to any Lightsheet Processing task. If this is not the case the software will ask
to save the data before proceeding.
All images and registration files resulting from Lightsheet Processing can be found in a Result folder
that is created in the folder of the original file, that was used for processing.
3.3.17.1 Dual Side Fusion
This processing task can be used for the following
datasets acquired with
Dual Side illumination:
−
Image (Snap function)
−
Time Series
−
Z-Stacks
−
Combinations of Time Series and Z-Stacks
−
Multiview experiments as well in
combination with Time Series
When a dataset has been acquired using
Dual
Side illumination, the dataset will have the
Illumination dimension saved in its metadata. Both
illumination sides are handled as single frames
within the image.
Dual Side Fusion provides two
options for merging both images from the
different illumination sides into a single frame.
Choose the dataset you wish to perform the task by mark either option (Fig. 229).
Mean Fusion :
The average intensity for each pixel is calculated using the values from both illumination sides.
or
Discrete Fourier Transform Fusion :
The fusion is performed based upon the published method ("Multiple imaging axis microscopy improves
resolution for thick-sample applications", Jim Swoger, Jan Huisken, and Ernst H. K. Stelzer, OPTICS
LETTERS / Vol. 28, No. 18 / September 15, 2003).
Fine structures and details are more visible after the fusion which might be worsened when using Mean
Fusion. However, this process can create noticeable artifacts in the resulting image.
After pressing Apply, a new .czi file will be generated. The original file name will be extended with
"_Dual Side Fusion". For this resulting dataset, the illumination dimension is no longer available.
Fig. 229 Processing – Lightsheet Processing. Dual
Side Fusion