Introduction to digital bioimage analysis | 3^rd Edition

12-15 October 2021 | i3S - Instituto de Investigação e Inovação em Saúde, Universidade do Porto

Due to the SARS-CoV-2/COVID-19 pandemic situation, it might happen that an on-site course cannot take place. In that case, an online version of the course will be organized from 11th to 15th (afternoons) October with the same program. 

With the advent of the digital era, nowadays images are multidimensional numerical data that can be processed and analyzed quantitatively to extract more information. With this course, we intend to give a general introduction to ImageJ/Fiji (imagej.net/), show how to use it to extract quantitative data, and how to write simple macros.

CONTENTS

-    Principles, techniques and ethics of digital bioimage processing.
-    Basic commands of ImageJ/Fiji software.
-    Working with multidimensional (2D, 3D, time-lapse, position) bioimages.
-    Enhancement and processing of images.
-    Extract quantitative numerical data.
-    Design of simple workflows for automation of image analysis with ImageJ macros.
-    Advanced ImageJ plugins (stitching, registration, colocalization)

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Batch analysis and macro development in ImageJ/Fiji: going beyond the basics | 3^rd Edition  

24-26 November 2021 | i3S - Instituto de Investigação e Inovação em Saúde, Universidade do Porto

This course is designed for ImageJ/Fiji users who want to go beyond the basics and progress to more intermediate/advanced analysis with this software.

The course focuses on how to automate routine tasks (for conditions in which many images need to be processed), as well as how to deal with more complex image analysis situations and maximize information extraction.

Although ImageJ can be used with its graphical user interface, the implementation of a workflow to multiple images requires the development of macros and/or scripts for batch processing.

In this course, the process is tackled by building up from the development of very simple macros to more complex workflows, where images are processed and information acquired in an automated or semi-automated way.

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