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    26 repositories

    • BoneJ2

      Public
      Plugins for bone image analysis
      imagejtravis-ciimage-processingscientific-computingjava-8image-analysisimagej-pluginsmaven-multimodulefiji-pluginskeletal-biology
      Java
      •
      BSD 2-Clause "Simplified" License
      •12•24•35•1•Updated Feb 5, 2026Feb 5, 2026

    • pom-scijava

      Public
      Friendly base POM for all SciJava-based software
      Shell
      •
      The Unlicense
      •35•0•0•0•Updated Nov 26, 2025Nov 26, 2025

    • BoneJ_Headless

      Public template
      Scripts for executing Fiji plugin BoneJ in headless mode in Python to compute bone microstructure metrics
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •5•0•0•0•Updated Oct 20, 2025Oct 20, 2025

    • LocalThickness

      Public
      Java
      •
      GNU General Public License v3.0
      •4•0•0•0•Updated Sep 21, 2025Sep 21, 2025

    • clinfo

      Public
      Print all known information about all available OpenCL platforms and devices in the system
      C
      •
      Other
      •84•0•0•0•Updated Jun 24, 2025Jun 24, 2025

    • clij-parent-pom

      Public
      BSD 3-Clause "New" or "Revised" License
      •3•0•0•0•Updated Jun 3, 2023Jun 3, 2023

    • bonej-scripts

      Public
      Helper scripts and macros using BoneJ
      jythonimagej-macroimagej-macrosimagej-macro-scripts
      ImageJ Macro
      •1•1•0•0•Updated Jul 18, 2022Jul 18, 2022

    • imagej-ops

      Public
      ImageJ Ops: "Write once, run anywhere" image processing
      Java
      •
      BSD 2-Clause "Simplified" License
      •42•0•0•0•Updated Aug 27, 2021Aug 27, 2021

    • clij

      Public
      CLIJ is deprecated. Visit CLIJ2
      Java
      •
      Other
      •9•0•0•0•Updated Jun 12, 2021Jun 12, 2021

    • clij-clearcl

      Public
      Multi-backend Java Object Oriented Facade API for OpenCL.
      Java
      •
      GNU Lesser General Public License v3.0
      •8•0•0•0•Updated Jun 12, 2021Jun 12, 2021

    • bonej

      Public
      BoneJ 1.x releases. For up-to-date code see https://github.com/bonej-org/BoneJ2
      Java
      •7•6•1•0•Updated Mar 10, 2021Mar 10, 2021

    • imagej.github.io

      Public
      GitHub Pages for ImageJ
      JavaScript
      •
      Other
      •173•0•0•0•Updated Nov 14, 2020Nov 14, 2020

    • list-of-update-sites

      Public
      The update sites ImageJ knows about automatically
      Python
      •104•0•0•0•Updated Mar 25, 2020Mar 25, 2020

    • javadoc.scijava.org

      Public
      Javadocs for SciJava projects
      HTML
      •0•0•0•0•Updated Aug 13, 2018Aug 13, 2018

    • imagej-common

      Public
      ImageJ core data model
      Java
      •
      Other
      •15•0•0•0•Updated Jul 4, 2018Jul 4, 2018

    • AnalyzeSkeleton

      Public
      ImageJ/Fiji plugin to analyze 2D and 3D skeleton images
      Java
      •
      GNU General Public License v3.0
      •21•0•0•0•Updated Jul 4, 2018Jul 4, 2018

    • BoneJ2Wiki

      Public
      Files for the wiki of the BoneJ2 repo
      0•0•0•0•Updated Jun 28, 2018Jun 28, 2018

    • scifio

      Public
      SCientific Image Format Input & Output: a flexible, extensible framework for image I/O. *EXPERIMENTAL* All API is subject to change, so depend at your own risk!…
      Java
      •
      Other
      •40•0•0•0•Updated Nov 9, 2017Nov 9, 2017

    • imagej-legacy

      Public
      Backwards compatibility with ImageJ 1.x
      Java
      •
      Other
      •27•0•0•0•Updated May 25, 2017May 25, 2017

    • scijava-common

      Public
      A plugin framework and application container with built-in extensibility mechanism
      Java
      •
      Other
      •53•0•0•0•Updated May 15, 2017May 15, 2017

    • ImageJFractalDimension

      Public
      Estimates fractal dimension of 2D and 3D images, including topographic surface maps
      Java
      •7•0•0•0•Updated Apr 13, 2017Apr 13, 2017

    • scifio-tutorials

      Public
      Tutorials for use of SCIFIO and its plugins.
      Java
      •
      Creative Commons Zero v1.0 Universal
      •4•0•0•0•Updated Mar 7, 2017Mar 7, 2017

    • imglib2-ij

      Public
      Translation between ImgLib & ImageJ data structures (both 1.x and 2)
      Java
      •
      Other
      •8•0•0•0•Updated May 11, 2016May 11, 2016

    • Skeletonize3D

      Public
      ImageJ/Fiji plugin to skeletonize binary images
      Java
      •12•0•0•0•Updated May 6, 2016May 6, 2016

    • VIB

      Public
      Java
      •33•0•0•0•Updated Apr 27, 2016Apr 27, 2016

    • imagej-tutorials

      Public
      ImageJ2 programming examples
      Java
      •116•0•0•0•Updated Feb 1, 2016Feb 1, 2016