ImageJ

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ImageJ

ImageJ


Screenshot of ImageJ
Developer:	Wayne Rasband (NIH)
Stable release	1.41m (19 September 2008)
OS:	Any (Java-based)
Genre:	Image processing
License:	Public Domain
Website:	[[Website::ImageJ home]]

ImageJ is a public domain, Java-based image processing program developed at the National Institutes of Health. ImageJ was designed with an open architecture that provides extensibility via Java plugins and recordable macros.^[1] Custom acquisition, analysis and processing plugins can be developed using ImageJ's built-in editor and a Java compiler. User-written plugins make it possible to solve many image processing and analysis problems, from 3-dimensional live-cell imaging,^[2] to radiological image processing,^[3] multiple imaging system data comparisons^[4] to automated hematology systems.^[5] ImageJ's plugin architecture and built in development environment has made it a popular platform for teaching image processing.^[6]

ImageJ can be run as an online applet, a downloadable application, or on any computer with a Java 1.4 or later virtual machine. Downloadable distributions are available for Microsoft Windows, Mac OS, Mac OS X, Linux, and the Sharp Zaurus PDA. The source code for ImageJ is freely available - an important issue when working with scientific images.

The project developer, Wayne Rasband, is at the Research Services Branch of the National Institute of Mental Health.

1 Specifications
2 History
3 See also
4 References
5 External links

[edit] Specifications

ImageJ can display, edit, analyze, process, save and print 8-bit, 16-bit and 32-bit images. It can read many image formats including TIFF, PNG, GIF, JPEG, BMP, DICOM, FITS, as well as raw formats. ImageJ supports image stacks, a series of images that share a single window, and it is multithreaded, so time-consuming operations such as image file reading can be performed in parallel with other operations. ImageJ can calculate area and pixel value statistics of user-defined selections and intensity thresholded objects. It can measure distances and angles. It can create density histograms and line profile plots. It supports standard image processing functions such as logical and arithmetical operations between images, contrast manipulation, convolution, Fourier analysis, sharpening, smoothing, edge detection and median filtering. It does geometric transformations such as scaling, rotation and flips. The program supports any number of images simultaneously, limited only by available memory.

[edit] History

Prior to the release of ImageJ in 1997, a similar freeware image analysis program known as NIH Image had been developed for Macintosh computers running pre-Mac OS X operating systems. A Windows version – ported by Scion Corporation – was also developed. Both versions are still available.

[edit] See also

Microscope image processing

[edit] References

↑ Girish V, Vijayalakshmi A (2004). "Affordable image analysis using NIH Image/ImageJ". Indian J Cancer 41 (1): 47. PMID 15105580.
↑ Eliceiri K, Rueden C (2005). "Tools for visualizing multidimensional images from living specimens". Photochem Photobiol 81 (5): 1116–22. doi:10.1562/2004-11-22-IR-377. PMID 15807634.
↑ Barboriak D, Padua A, York G, Macfall J (2005). "Creation of DICOM–aware applications using ImageJ". J Digit Imaging 18 (2): 91–9. doi:10.1007/s10278-004-1879-4. PMID 15827831.
↑ Rajwa B, McNally H, Varadharajan P, Sturgis J, Robinson J (2004). "AFM/CLSM data visualization and comparison using an open-source toolkit". Microsc Res Tech 64 (2): 176–84. doi:10.1002/jemt.20067. PMID 15352089.
↑ Gering E, Atkinson C (2004). "A rapid method for counting nucleated erythrocytes on stained blood smears by digital image analysis". J Parasitol 90 (4): 879–81. doi:10.1645/GE-222R. PMID 15357090.
↑ Burger W, Burge M (2007). Digital Image Processing: An Algorithmic Approach Using Java. Springer. ISBN 1846283795.

[edit] External links

ImageJ home
ImageJ for Microscopy - from the McMaster Biophotonics Facility
ImageJ Documentation Wiki
Review of ImageJ by Forrest Mims III in The Citizen Scientist, the journal of the Society for Amateur Scientists.

[edit] ImageJ Plug-ins

ImageJ Plugin home
ImageJ Plugin Project @ Sourceforge.net
Bio-medical Imaging plugins
OptiNav plugin set: Aeroacoustics, real time histograms, deconvolutions.
Large set of plugins by Gabriel Landini
Albert Cardona's 3D editing plugins.
Plugins for surface assessment from GCSCA
TrakEM2: a plugin for morphological data mining, 3D modeling, and image stitching, registration, editing and annotation.
Various plugins by Ulf Dittmer: Expression, HPGLReader, OpenGLExample, Pixellate, Seam Carving, Warp
SIFT-implementation by Stephan Saalfeld: A lightweight SIFT-implementation under GPL, see more about SIFT algorithm
bUnwarpJ by Ignacio Arganda-Carreras: a plugin for consistent and elastic image registration.

[edit] ImageJ Distributions

Fiji: Fiji is Just ImageJ, batteries included. Fiji is an ImageJ distribution that bundles a collection of plugins, jar libraries and scripting languages in a consistent framework. Many scripting languages supported (see Scripting). Fiji focuses on image registration, stitching, segmentation and 3D visualization.