Where Ideas Grow

Introduction to digital bioimage analysis, 2nd Edition

23, 24, 25, 28, 29 and 30 September 2020 | ONLINE COURSE

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. This edition will be online (ZOOM) sessions with a practical approach. 


Course approximate duration: 20 hours

Target audience: This course will be focused on the analysis of light microscopy images, but is targeted to all people engaged in research.

Requirements: Laptop with Image/Fiji installed; Zoom for online meetings.

Course Coordination:
Mafalda Sousa, i3S/ IBMC | Paula Sampaio, i3S/ IBMC

Course team:
Mafalda Sousa, i3S
Paula Sampaio, i3S
Maria Azevedo, i3S
Daniela Rodrigues, i3S


  • 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.



Registration fee includes access to the course (total 20 hours), course material and certificate.

Early bird registration | Until 17 July 2020 
i3S members - 75 €
External participants - 100 €

Late registration | Until 1st September 2020 
i3S members - 100 €
External participants - 125 €


Your pre-registration will be confirmed and the fee payment will be requested once the minimum of participants is guaranteed. The payment has to be done until 5 working days after the registration confirmation.

Limited number of participants


More Information:
Advanced Training Unit | E-mail: training@i3s.up.pt | Tel: +351 226 074 900