ImageJ/Fiji course

ImageJ or FIJI (stands for Fiji Is Just ImageJ) is a public domain image processing and analysis program. It is freely available http://imagej.nih.gov/ij/index.html.

Goals
The main objective of this course is to give the microscopy user a global understanding of the huge potential of the program. We will go through all functionalities of the basic package and present specific tools for use in (cell) biology. During the course we will also review concepts and principles of image processing in general, in order to set a theoretical background.

Format
The course is split over 2 days, both featuring theoretical presentations and interactive practice examples, and is intended for all microscopy users who are interested in image processing and analysis. 

Details
The course is split over 2 days, both featuring theoretical presentations and interactive practice examples. We will introduce the basic concepts of microscopy image analysis, such as color handling, bit depth & multi-channel images. It will cover image processing in ImageJ and an overview of the many ​ image analysis functions within this free software package. We will show you how to open images from proprietary file types (such as Leica .lif and Zeiss .czi files), how to get from raw data to a multi-panel, multi-color paper or talk figure, create multi-color images, add scale bars, work with hyperstacks, and install and use plugins and macros. You will learn how to enhance and filter images, use multichannel images and stacks, and perform basic analysis such as counting cells, segmentation and intensity analysis.

In the afternoon session of day 2, we will cover more advanced analysis, identification of cell subtypes in multichannel images, colocalisation and how to write macros.


Date: Friday November 30 & December 14, 2018
Location: NKI-AvL
Target audience: This course is intended for OOA microscopy users who are interested in image processing and analysis. For practical reasons, places will be limited to 18 participants
ECTS: 0.3
Requirement: please bring your own laptop computer
Organization: NKI-AvL BioImaging Facility: Lenny Brocks, Bram van den Broek, Marolijn Mertz, Amalie
Information: bioimaging@nki.nl 
Registration: Click here to register
Registration deadline: November 9, 2018