title: BoneJ: Free and extensible bone image analysis in ImageJ.
abstract: Bone geometry is commonly measured on computed tomographic (CT) and X-ray microtomographic (μCT) images. We obtained hundreds of CT, μCT and synchrotron μCT images of bones from diverse species that needed to be analysed remote from scanning hardware, but found that available software solutions were expensive, inflexible or methodologically opaque. We implemented standard bone measurements in a novel ImageJ plugin, BoneJ, with which we analysed trabecular bone, whole bones and osteocyte lacunae. BoneJ is open source and free for anyone to download, use, modify and distribute.
authors.affiliation: Department of Bioengineering, Imperial College London, South Kensington, London SW7 2AZ, UK. m.doube@imperial.ac.uk
authors.forename: Michael
authors.initials: M
authors.lastname: Doube
authors.forename: Michał M
authors.initials: MM
authors.lastname: Kłosowski
authors.forename: Ignacio
authors.initials: I
authors.lastname: Arganda-Carreras
authors.forename: Fabrice P
authors.initials: FP
authors.lastname: Cordelières
authors.forename: Robert P
authors.initials: RP
authors.lastname: Dougherty
authors.forename: Jonathan S
authors.initials: JS
authors.lastname: Jackson
authors.forename: Benjamin
authors.initials: B
authors.lastname: Schmid
authors.forename: John R
authors.initials: JR
authors.lastname: Hutchinson
authors.forename: Sandra J
authors.initials: SJ
authors.lastname: Shefelbine
mesh_terms: D000818:Animals; D001842:Bone and Bones / Q000033:anatomy & histology* / Q000000981:diagnostic imaging; D007091:Image Processing, Computer-Assisted / Q000379:methods*; D010011:Osteocytes / Q000166:cytology; D015203:Reproducibility of Results; D012984:Software; D017356:Synchrotrons; D055114:X-Ray Microtomography
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