ImageJ & Fiji

ImgeJ & Fiji are public domain Java image processing and analysis programs inspired by NIH Image for the Macintosh. They run, either as an online applet or as a downloadable application, on any computer with a Java?1.5 or later virtual machine.  Both are available on all MXIF computers.




Downloadable distributions if Image J are available for Windows, Mac OS?X and Linux. It can display, edit, analyze, process, save and print 8-bit, 16-bit and 32-bit images. It can read many image formats including TIFF, GIF, JPEG, BMP, DICOM, FITS and ‘raw’. It supports ‘stacks’ (and hyperstacks), a series of images that share a single window. It is multithreaded, so time-consuming operations such as image file reading can be performed in parallel with other operations

It can calculate area and pixel value statistics of user-defined selections. It can measure distances and angles. It can create density histograms and line profile plots. It supports standard image processing functions such as contrast manipulation, sharpening, smoothing, edge detection and median filtering. it can also performgeometric transformations such as scaling, rotation and flips.  The program supports any number of windows (images) simultaneously, limited only by available memory.

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Fiji is an image processing package. It can be described as a distribution of ImageJ together with Java, Java 3D and a lot of plugins organized into a coherent menu structure. Fiji compares to ImageJ as Ubuntu compares to Linux. The main focus of Fiji is to assist research in life sciences.

For users, Fiji is easy to install and has an automatic update function, bundles a lot of plugins and offers comprehensive documentation.

For developers, Fiji is an open source project hosted in a Git version control repository, with access to the source code of all internals, libraries and plugins, and eases the development and scripting of plugins.