The plug-ins are stored with the programme (e.g. You can add downloaded plugins to your copy of Image J to personally customise it and thus tune it to your purposes. Image J works from user-written plug-in macros that are contained within the core programme that you install on your computer. You can use it to do contrast manipulation, colocalisation analysis, deconvolution and much more …

It can measure distances and angles, create density histograms and line profile plots. Image J can calculate area and pixel value statistics of user-defined selections and intensity thresholded objects. Image J supports image stacks (a series of images that share a single window) such as a single stack of a Z-series or time-series. It can read many image formats including TIFF, GIF, JPEG, BMP, as well as raw formats. Image J will also handle some 12-bit images ( ImageJ2 supports many more formats). Image J can display, edit and analyse 8-bit, 16-bit and 32-bit images. You can listen to this online introduction podcast to ImageJ by Kevin Eliceiri here. ImageJ2 extends the capability of ImageJ to support the next generation of multidimensional scientific imaging, see this paper for further details, and this flavours link. A good introduction can be found on Wikipedia with a general history in Nature Methods and a later paper explaining the development of ImageJ2 – the ImageJ ecosystem – in a special issue of Molecular Reproduction & Development on Advances in Biological Imaging. It was developed by Wayne Rasband at the National Institute for Health, subscribing to the four freedoms underpinning truly free software.

For those of you using Apple Mac or Linux operating systems, Image J is a free, non-commercial, Java-based cross-platform image analysis and display programme in the public domain that you can tune to your own requirements.

laser-scanning confocals) run solely from Windows-based software, and save the images generated on those microscopes in a brand-dependant proprietary format. Many of the core facility microscopes (e.g.

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