EPFL | Biomedical Imaging Group

Create Your Own ImageJ Plugin as Easy as Pie

D. Fortun, D. Sage

Proceedings of Functional Microscopy for Biology (MiFoBio'18), Seignosses, French Republic, October 5-12, 2018, pp. 110.

ImageJ is the most popular software for image analysis in biological imaging. The biologists mainly use the manual commands and the macros for automation. However, there exists another more powerful way to perform image processing tasks by directly creating ImageJ plugins with Java. The procedure is simple and not reserved to computer scientists.

In this workshop, we will learn how to easily develop ImageJ plugins with minimal programming knowledge. We will show how to make basic and advanced pixel-wise operations on multidimensional images, which would require tedious effort with existing tools of ImageJ. For this purpose, we exploit the straightforward interface between the Eclipse coding environment and the ImageJ API. We rely on our long experience in teaching image processing in this framework for Master students. We will guide the participants in writing their own image analysis routines for multidimensional images.

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