SciJava Common is a shared library for SciJava software. It provides a plugin framework, with an extensible mechanism for service discovery, backed by its own annotation processor, so that plugins can be loaded dynamically. It is used by downstream projects in the SciJava ecosystem, such as ImageJ and SCIFIO.

ImageJ2 is a rewrite of ImageJ for multidimensional image data, with a focus on scientific imaging.

SCIFIO is a library for scientific N-dimensional image I/O.

The legacy component enables backward compatibility with the original version of ImageJ (1.x). It contains the code necessary to translate between ImageJ and ImageJ2 images, so that ImageJ plugins can be executed faithfully.

ImageJ Operations: a framework for reusable algorithms.

SciJava user interface components for Java Swing.

ImageJ UI for Java Swing.

A runtime patcher to introduce extension points into the original ImageJ (1.x). This project offers extension points for use with ImageJ2 and it also offers limited support for headless operations.

Compatibility layer for using un-converted Bio-Formats readers in SCIFIO applications.

The executable which runs ImageJ. Its purpose is also to make sure that updates downloaded by the ImageJ Updater will be put into place before starting the Java Virtual Machine.

Fiji plugin for the annotation of massive, multi-view data.