Image Analysis with Fiji

From images to data

Bioimaging is a rich source of data in biology. However, quantifying those data requires a strong understanding of the correct computational techniques. This course provides an introduction to those techniques using Fiji (powerful and free image analysis software designed for biological applications). We'll also look at managing image data with OMERO and the ethics of image analysis.

Next session: May 2021

Instructors

Matthew Hartley
Grant Calder
Tjelvar Olsson

Audience

For those interesting in exploring the data contained in their microscopy images, or those planning microscopy as part of their research programme.

Overview

We make extensive use of both light and electron microscopy in our research. The aquisition of images by a microscope is only the beginning of the process of extracting meaningful and useful information from those images. This course will conver the process of dealing with microscopy data converting between formats and analysing images. We'll also look at how to manage your image data using OMERO, an image management program, and the ethics involved in image analysis for publication.

Schedule

Day1

9:30	Start
11:30	Coffee break
12:30	End

Learning outcomes

By the end of the course you should be able to:

Understand the basic principles of image analysis and the importance of metadata
Be able to use Fiji to open microscope images and explore both the image data and associated metadata
Be able to log onto OMERO, upload and download images and view image metadata
Be able to use Fiji to carry out measurements of image features (such as cell sizes)
Understand the ethics of image analysis, including what it and is not acceptable for journal publication