Introduction

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Learn
Topics
Introduction
Getting Started
User Guides
Tutorials
Tips and Tricks
Presentations
Plugins
Techniques
All Techniques
Colocalization
Deconvolution
Registration
Segmentation
Stitching
Tracking
Visualization
Scripting
Overview
Parameters
Basics of script writing
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?

Imagej2-icon.png ImageJ is an open source image processing program for multidimensional image data with a focus on scientific imaging.

What is Fiji?

Fiji-icon.png 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?