ImageJ/Fiji Level 2: Automation and batch processing using macros
Duration 0.5 days
Team Faculty of Life Sciences


An introduction to macro writing in ImageJ/Fiji​

This workshop is suitable for anyone acquiring microscopy data as part of their research. Familiarity with ImageJ/Fiji will be necessary; in particular the content covered in the Introduction to ImageJ/Fiji course (materials available here http://bit.do/imagej2016​   No prior knowledge of programming is necessary. The practical components are designed to enable attendees to work at their own pace.

The workshop will begin with a presentation introducing fundamental concepts of programming with a specific emphasis on the ImageJ macro language. Attendees will then learn how to run an automated image processing and segmentation routine on microscopy images by carrying out a series of hands-on exercises using provided images.

The examples used will concentrate on fluorescence microscopy but the techniques used are widely applicable to other types of images. There will not be an opportunity for users to work on their own data during these sessions but further guidance is available for this.

Training will be provided by staff from the Wolfson Bioimaging Facility during the hands on session which will cover basic user interface elements, running image processing techniques, plotting data and batch processing multiple images. Advice will also be provided on finding further information and on opportunities for Facility users to receive further help from our support staff.



If you have questions about the workshop, please contact Mark Jepson.

IMPORTANT NO-SHOW POLICY: If you are unable to attend the course after registration, please cancel online and email Ms Elaine.Sparey@bristol.ac.uk) at least 24 hours before the start of the course. The course is expected to be popular, and space will be limited. If you fail to give notice of a cancellation at least 24h prior to the start of the course without good reason, then your Supervisor will be charged £50 for your non-attendance.

LocationStart DateAll DatesTimesPlaces AvailableTutorBook
School of Medical Sciences27 May 202027 May 20201:00pm - 4:30pm11Dr Mark Jepson