BoneJ is a plugin for bone image analysis in ImageJ. It provides free, open source tools for trabecular geometry and whole bone shape analysis.
There's a new experimental, modernized BoneJ available through the ImageJ updater. It's update site is BoneJ experimental. Detailed installation instructions are available on GitHub. This software is not yet stable, but it works with the latest Fiji.
BoneJ was designed to work with plain ImageJ 1.x.
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's
- Launch Fiji and run 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 http://bonej.org/ it still includes older versions of the pQCT tools.
- Doube, M.; Kłosowski, M. M. & Arganda-Carreras, I. et al. (2010), "BoneJ: Free and extensible bone image analysis in ImageJ", Bone 47(6): 1076-1079, PMID 20817052, <http://www.sciencedirect.com/science/article/pii/S8756328210014419> (on Google Scholar).