College of Medicine, Biological Sciences and Psychology
Advanced Imaging Facilities

ImageJ/Fiji workshops 19 and 20 December 2011

17/11: Workshop Introduction ImageJ/Fiji is now full. There are still a few places for the macro workshop .

Download application form ; Deadline Monday 12 December 2011, but maximal 24 places.

ImageJ is a public domain image processing and analysis program written in Java. It is freely available (http://imagej.nih.gov/ij/index.html) and used by many scientists all over the world. ImageJ is written by Wayne Rasband, who is a Special Volunteer at the National Institute of Mental Health, Bethesda, Maryland, USA. There is a very active ImageJ community and ImageJ is continuously improved. Fiji (Fiji stands for Fiji is Just ImageJ) is a distribution of ImageJ focussed on 3D image reconstruction and analysis . The 'feel' and working of Fiji is as in ImageJ (see pictures below). During these two one day workshops you will get an introduction into the use of ImageJ/Fiji for digital image processing. During the different sessions we will also try to answer specific questions from participants concerning image analysis of their own data.

The workshops are focussed on scientists who want to use or have started to use ImageJ but are not sure how to make best use of it.

Introduction to ImageJ/FIJI; Monday 19 December
A one day introduction workshop for ImageJ/FIJI. The aim of this day is to familiarise you with ImageJ. During this day there will be lectures and hands-on sessions on how to use ImageJ/FIJI for analysis of microscopy data and we will have a closer look at different plugins. Participants are advised to bring their own laptop with ImageJ installed for the hands-on sessions.

Writing macros in ImageJ; Tuesday 20 December
The introduction course will be followed by a one day workshop looking at automations using macros in imageJ/FIJI. The macro language is a powerful tool to analyse large data sets. During this workshop we will look how to select a directory, how to write a macro to analyse the data and how to reuse code. Programming knowledge is not required to follow the workshop. Participants are advised to bring their own laptop with ImageJ installed for the hands-on sessions.

Workshop fees:

Fees include lecture notes, refreshments and lunches.

Program (subject to changes)

Monday 19 December:

10.00 - 10.45: Introduction lecture

10.45 - 11.15: Coffee

11.15 - 13.00: Hands-on sessions

13.00 - 13.30: Lunch

13.30 - 14.15: lecture

14.15 - 15.30: Plugins and future developments

15.30 - 16.00: Coffee

16.00 - 17.00: Hands-on sessions

Tuesday 20 December:

9.30 - 10.15: Introduction to macros

10.15 - 10.45: Coffee

10.45 - 12.30: Hands-on sessions

12.30 - 13.15: Lunch

13.15 - 15.00: Hands-on sessions

15.00 - 15.30: Coffee

15.30 - 16.30: Hands-on sessions

Download application form ; Deadline Monday 12 December 2011.
We can now accept credit card payments. This is done via shop@le. When you submit your application form you can indicate if you would like to pay by credit card and you will receive a password and link to make use of the shop. For billing purpose you will be asked to create an account.

Additional information

Accomoddation in Leicester
Maps and directions
Download poster

The workshops are organized by Dr Kees Straatman (krs5@le.ac.uk), manager of the Advanced Imaging Facilities, part of the Centre for Core Biotechnology Services from the College of Medicine, Biological Sciences and Psychology, University of Leicester.