Image Analysis Workshop

March 21, 2024
Arizona State University, Biodesign A Lower Level Atrium

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The focus of this workshop is to introduce researchers to methods in analyzing microscope data using multiple tools such as Cell Profiler, ImageJ/FIJI, Elements and the VS200 software. Limitations of image manipulation and ethical responsibility will also be discussed. Anyone working with microscopes is encouraged to attend.

Check-in, light breakfast [9:00AM – 9:30AM]

Cell Profiler [9:30AM – 11:30AM]
Beth Cimini, Associate Director for Bioimage Analysis, Broad Institute of MIT and Harvard
This session will focus on the free open-source software, Cell Profiler, used for measuring and analyzing cell images. Advanced algorithms for image analysis are available as individual modules that can be configured to form a pipeline.  Program can be freely downloaded at

Imaging Ethics [11:30AM – 12:30PM]
Doug Cromey,
Director of the SWEHSC Cellular Imaging Facility Core, University of Arizona
Session will review how to maintain the integrity of image content and context as well as how to avoid manipulating images such that it can mislead a viewer or misrepresent data.

Lunch Break [12:30PM-1:30PM]

ImageJ/FIJI [1:30PM – 2:30PM]
Jordan Yaron, Assistant Research Professor, School for Engineering of Matter, Transport and Energy, Arizona State University
Session will focus on the effective use of ImageJ/FIJI. To participate in real time, please download FIJI from: before the seminar. Topics will include routine use as well as an overview of macro writing, batch processing and automated analysis routines.

NIS Elements [2:30PM – 3:30PM]
Sara Parker
, Advanced Imaging Specialist, Nikon Instruments
Overview of Nikon’s advanced image analysis and visualization platform.

Break [3:30PM – 3:40PM]

VS200 Software [3:40PM – 4:50PM]
Gavin Ryan, Research Imaging Sales Representative, Olympus/Evident
Overview of Olympus’ image analysis software used for analyzing slide scanning data.

Closing Remarks [4:50PM – 5:00PM]

This workshop provides training that can be applied to the ethics training required by NSF and NIH funded grants. A record of attendance will be collected for each attendee.