This course will teach the basics of image analysis in ImageJ/Fiji, covering set-up, parameter selection, and output interpretation.
This course is designed to be completed in 1-2 hours. Your progress will be saved and you can return at any time.
Dr Lukasz Chrobok is a lecturer and research fellow at the School of Physiology, Pharmacology & Neuroscience at the University of Bristol. He specialises in circadian rhythm and neurobiology, and has previously delivered webinars on immunofluorescence and immunohistochemistry image analysis.
Welcome to Image Analysis Using ImageJ!
Lecturer and research fellow, Dr. Lukasz Chrobok, will teach you the basics of how to perform image analysis in ImageJ/Fiji, covering set-up, parameter selection, and output interpretation.
Performing the best quality of image analysis possible starts before you even turn on your computer. This section will talk you through the steps you can take to ensure that the images you analyze will produce robust data consistently.
In this section of the course, we will be learning about the different types of images you can manipulate in ImageJ and we will cover the basics of how to use the software.
In this section, we will introduce look-up tables, Z-projections, and show you how to perform intensity and density measurements on your images.
Thresholding is a technique that allows image segmentation, allowing users to separate out pixels of interest from background noise.
In this section, we will explain how to perform the different types of thresholding available in ImageJ.
Performing intensity calculations becomes more complex when working with imperfect sections. Your data can easily be skewed if your background has a high level of intensity.
In this section, we will cover how to factor in the background intensity level when performing intensity calculations to make your data more accurate.
The source of ImageJ's versatility lies within the wide range of plug-ins available. Many of these plug-ins are incredibly useful, yet still easy to use.
This section will cover how to use the cell counter plug-in for counting analysis of your stained images.
Macros are automated scripts that allow you to perform a series of tasks without having to select each one individually. They can streamline image processing workflow, saving you time and ensuring consistency in your analyses.
When used appropriately, macros can be powerful tools for auto your workflows. This lesson will focus on how to record your own macros and how to use them.
Take this short quiz to recap what we have learned so far.
Congratulations on completing the Proteintech ECR Training Hub Image Analysis using ImageJ course. You are now ready to start analyzing your images!
Let's recap what we have learned.