ImageJ

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ImageJ

Screenshot of ImageJ
Developer(s) Wayne Rasband (retired from NIH)
Stable release 1.47 / 8 July 2013 (2013-07-08)
Operating system Any (Java-based)
Type Image processing
License Public Domain
Website imagej.net

ImageJ is a public domain, Java-based image processing program developed at the National Institutes of Health.[1][2] ImageJ was designed with an open architecture that provides extensibility via Java plugins and recordable macros.[3] 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 three-dimensional live-cell imaging,[4] to radiological image processing,[5] multiple imaging system data comparisons[6] to automated hematology systems.[7] ImageJ's plugin architecture and built in development environment has made it a popular platform for teaching image processing.[8][9]

ImageJ can be run as an online applet, a downloadable application, or on any computer with a Java 5 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.[10]

The project developer, Wayne Rasband, retired from the Research Services Branch of the National Institute of Mental Health in 2010 but continues to develop the software.

Features

ImageJ can display, edit, analyze, process, save, and print 8-bit color and grayscale, 16-bit integer and 32-bit floating point 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 can be performed in parallel on multi-CPU hardware. 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.

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. Further development of this code continues in the form of Image SXM, a variant tailored for physical research of scanning microscope images. A Windows version – ported by Scion Corporation (now defunct), so called Scion Image for Windows – was also developed. Both versions are still available but -- in contrast to NIH Image -- closed source.[11]

See also

  • Microscope image processing
  • Fiji (Fiji Is Just ImageJ), an image processing package based on ImageJ
  • Bitplane - producers of image processing software with ImageJ compatibility
  • CoLocalizer Pro - software application for quantification of colocalization in fluorescence microscopy images
  • IRIS - A freeware image processing software for astronomy
  • Marvin - Another Java-based image processing framework
  • CVIPtools A complete GUI based Computer Vision and Image Processing software, with C functions libraries COM based dll along with two utilities program for algorithm development and batch processing.
  • KNIME - an open source data mining environment supporting image analysis developed in close collaboration with the next generation of ImageJ
  • RapidMiner - a commercial tool for data mining with an open source core and an open source image mining extension

References

  1. ↑ Schneider CA, Rasband WS, Eliceiri KW (2012). "NIH Image to ImageJ: 25 years of image analysis". Nat Methods 9 (7): 671–675. doi:10.1038/nmeth.2089. PMID 22930834. 
  2. ↑ Collins TJ (July 2007). "ImageJ for microscopy". BioTechniques 43 (1 Suppl): 25–30. doi:10.2144/000112517. PMID 17936939. 
  3. ↑ Girish V, Vijayalakshmi A (2004). "Affordable image analysis using NIH Image/ImageJ". Indian J Cancer 41 (1): 47. PMID 15105580. 
  4. ↑ 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. 
  5. ↑ 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. PMC 3046706. PMID 15827831. 
  6. ↑ 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. 
  7. ↑ 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. 
  8. ↑ Burger W, Burge M (2007). Digital Image Processing: An Algorithmic Approach Using Java. Springer. ISBN 1-84628-379-5.  Unknown parameter |unused_data= ignored (help)
  9. ↑ Dougherty, G (2009). Digital Image Processing for Medical Applications. Cambridge University Press. ISBN 978-0-521-86085-7.  Unknown parameter |unused_data= ignored (help)
  10. ↑ Rueden CT, Eliceiri KW (July 2007). "Visualization approaches for multidimensional biological image data". BioTechniques 43 (1 Suppl): 31, 33–6. doi:10.2144/000112511. PMID 17936940. 
  11. ↑ "NIH Image: About". Retrieved 2008-11-18. 

External links

Distributions

  • ImageJ for Microscopy - from the McMaster Biophotonics Facility
  • Fiji (Fiji is Just ImageJ): An ImageJ bundled distribution; many scripting languages supported (see Scripting). Fiji focuses on image registration, stitching, segmentation and 3D visualization.

Plug-ins

NIH Image

Image processing software
Free software
Proprietary
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