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Overview

ImageJ is the industry standard for scientific imaging, it's free and open source but has a reputation for being difficult to learn, it's not but the wide variety of available tools can make it difficult to know where to start. 

We will start with a short discussion of the basic concepts, cover segmentation, object counting and 3d animation of data. Although based around fluorescence microscopy these techniques are equally applicable to other disciplines.

Bring your own data or work through exercises with carefully curated sample data sets collected on our in-house microscopes. We have computers available, if you bring your own, ensure you have the Fiji version of ImageJ installed. 
 

Who is the course for?

Complete beginners or those with a little experience in ImageJ who need some pointers on what to do with their data. 
 

What does the course cover? 

  •     Basic principles, appropriate file formats and scientific integrity in image processing. 
  •     First steps - Flattening 3d data into something printable - Z projection and adding scale bars
  •     Segmentation - Noise removal, automated counting in 2d - Live/dead cell assays
  •     Segmentation 2 - 3d object counting in a large data set
  •     3d Rendering - two ways to view your data in 3d
  •     Colocalisation - quantitative comparison of different channels
 

Outcomes

By the end of the course

  • Be able to use most of the common ImageJ tools and understand what is legitimate image manipulation and what's basically cheating 
  • Know how to automatically count objects in 2 and 3d
  • Generate simple but compelling images from 3d data
  •  Know how to extract quantitative fluorescence data

 

Contact

For further information about the course please contact Tia Salter, Senior Professional Development Officer, at [email protected] or on 020 3925 3460.

 

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