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Cancer Institute
Microscopy Core Facility
Z
A
I
A1
M1
EISS
XIO
MAGER
AND
A U
G
SERS
UIDE
This is intended to provide a basic coverage of use of the Zeiss Axio Imager M1 for multi-
channelled fluorescent acquisition. For more complex usages please contact
Fig.1 – Front View of Microscope
Viewing
Slide
Microscope
Ocular Viewer
control
touch-screen
Mercury Lamp
(Reflected light)
Main Stage
Control Box
Microscope Power
st
1
Focusing
Supply Box
Wheel
V1.0

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Summarization of Contents

Locate Focal Plane of Sample
Select Magnification
Choose the correct magnification level for sample viewing and focusing.
Image Processing and Annotation
Viewing Images or Z-Stacks
How to view collected images and Z-stacks within the software interface.
Deconvolution of Z-Stack
Using deconvolution to clean up images and remove aberrations.
Orthoview Processing
Averaging and overlaying Z-stack images into a single 2D view.
Image Annotations
Adding scale bars, text, and geometric shapes for publication.