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BoneJ is a plugin for bone image analysis in ImageJ. It provides free, open source tools for trabecular geometry and whole bone shape analysis.
Current release (BoneJ2)
There’s a new modernized version of BoneJ available through the ImageJ Updater. Read more about BoneJ2.
Legacy (BoneJ v1.x) Installation
BoneJ was designed to work with the original ImageJ.
BoneJ can be installed into Fiji, but you must use the Java-6 version of Fiji, not the current Java-8 version:
- Download the final Java-6 version of Fiji labeled “2017 May 30” from here.
- Unpack it somewhere beneath your home folder.
- Download and install
BoneJ_.jarinto that installation’spluginsfolder. - Launch Fiji and run Plugins › 3D Viewer to trigger installation of the 3D Viewer.
- Restart Fiji.
For technical details about ImageJ and Fiji using Java 6 vs. Java 8, see the Java 8 page.
BoneJ and pQCT
BoneJ and pQCT plug-ins are in the process of separation. The latter have their own update site, and they don’t need BoneJ to work. However, if you download BoneJ_.jar from bonej.org it still includes older versions of the pQCT tools.
