ImageJ

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Topics Introduction Getting Started User Guides Tutorials Tips and Tricks Presentations Plugins
Techniques All Techniques Colocalization Deconvolution Registration Segmentation Stitching Tracking Visualization
Scripting Overview User input Basics of script writing How to use the Javadoc Batch processing Script Editor Auto Imports Templates Running headlessly Comparisons Toolbox Multithreading in Clojure Multithreading in JavaScript Chess in Jython
Languages BeanShell Groovy ImageJ Macro JavaScript Lisp (Clojure) MATLAB Python (Jython) R (Renjin) Ruby (JRuby) Scala

What is ImageJ?

ImageJ is an open source image processing program for multidimensional image data with a focus on scientific imaging.

What is Fiji?

Fiji Is Just ImageJ—a "batteries-included" distribution of ImageJ which includes many useful plugins contributed by the community.

What does ImageJ provide?

Application	A user interface with functions to load, display, and save images.
Techniques	Image processing, colocalization, deconvolution, registration, segmentation, tracking, visualization and much more.
Plugins	A powerful mechanism for extending ImageJ in all kinds of useful ways.
Scripting	Automated, reproducible workflows via scripts and macros, including headless on a remote server or cluster.
Forum	A vibrant, diverse, and helpful user community that gives rise to insightful scientific exchanges.

ImageJ's extensibility is the root of its effectiveness: many advanced image-processing methods are not provided by the core application, but rather are plugins written by specialists in specific fields, made available via update sites.

How do I get started?

• Get ImageJ from the Downloads page
• Read the Getting started tutorial.
• Then peruse the User Guides, additional tutorials, and presentations.