The micaToolbox supports Windows, Mac & Linux

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File:MacOS logo (2017).svg

1 Download & Install ImageJ

The micaToolbox is an add-on for the standard NIH ImageJ (not FIJI). ImageJ can be downloaded for almost any operating system here. In general, use a version bundled with Java. Note the specific instructions for MacOS (path randomisation) which are flagged on the download page.

To install ImageJ simply unzip the contents of the zip file to a location on your computer. In windows, avoid unzipping to a system-protected location such as Program Files. Use some other location on your hard drive (e.g. somewhere in Documents).

Double-click the “ImageJ” or “ImageJ.exe” file to run ImageJ. You can make a shortcut to this file if you want easy access.

2 Download & Install the micaToolbox

Download the latest micaToolbox version (links below).

Unzip the contents of the zip file to your ImageJ/Plugins directory. If ImageJ is currently running, either restart it, or go help>refresh menus to load the toolbox.

Rename the directory from “micaToolbox-master” to “micaToolbox”.

> Download Latest Version <

This ink will download the latest version. Note that this is a BETA version which has not been subject to scientific peer review, use at your own risk! Do not install this version into the same ImageJ  as previous versions of the toolbox.


Please visit the micaToolbox GitHub repository for downloading older versions.