ImageJ Docs

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  • ImageJ Basics

    • Tutorials
    • User Guides
    • Keyboard Shortcuts
    • Tips and Tricks
    • Troubleshooting
    • Frequently Asked Questions
    • Supported Platforms

      • Windows
      • MacOS
      • Linux
      • Raspberry Pi
      • Android
    • File Formats

      • Bio-Formats
      • Video formats
      • QuickTime
      • TIFF
      • PDF
      • DICOM
      • Zeiss LSM
      • Olympus VSI
      • Opera Flex
      • FIB-SEM
  • Scientific Imaging

    • Principles of Scientific Imaging
    • Annotating Images
    • Colocalization
    • Color Image Processing
    • Deconvolution
    • Image Intensity Processing
    • Particle Analysis
    • Registration
    • Segmentation
    • Stack-slice Manipulations
    • T-functions
    • Tracking
    • Visualization
    • Z-functions
• Extend

  • List of Extensions
  • Update Sites

    • List of Update Sites
    • Following an Update Site
    • Creating an Update Site
    • Terms of Service
    • Automatic Upload
    • Uploading to Core Sites
    • Update Sites FAQ
  • Scripting

    • Batch Processing
    • Scripting Basics
    • User Input
    • Using Javadocs
    • Script Editor
    • Auto Import
    • Templates
    • Running Headlessly
    • Scripting Comparisons
    • Toolbox
    • Multithreading with Clojure
    • Multithreading in Javascript
    • Chess in Jython
    • Languages

      • BeanShell Scripting
      • Groovy Scripting
      • ImageJ Macro
      • JavaScript
      • Batch Processing
      • Lisp (Clojure)
      • MATLAB
      • Python (Jython)
      • R (Renjin)
      • Ruby (JRuby)
      • Scala Scripting
  • Development

    • Philosophy
    • Architecture
    • Source code
    • Project management
    • Coding style
    • Debugging
    • Wish list
    • Tools

      • GitHub
      • Maven
      • IDEs

        • Eclipse
        • NetBeans
        • IntelliJ IDEA
        • Command Line
      • Travis
      • AppVeyor
      • Dotfiles
    • Guides

      • Writing plugins
      • Contributing to a plugin
      • Development lifecycle
      • Building a POM

      ---

      • Hands-on debugging
      • Adding new ops
      • Adding new formats
      • Using native libraries
      • Tips for developers
      • Tips for C++ developers
      • ImageJ 1.x plugins
      • Versioning
      • Logging
      • Uber-JARs
    • Git

      • Git in Eclipse (EGit)
      • Git mini howto
      • Git workshop
      • Git conflicts
      • Git topic branches
      • Git notes
      • Git reflogs
      • Git submodules
      • How to pinpoint regressions
      • How to publish a git repository
      • How to extract a subproject
• Contribute

  • Citing
  • Contributors
  • Organizations
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  • Funding
  • Contributing to Fiji
  • Licensing

    • Open Source

      • Apache
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      • LGPL
      • MIT
      • Public domain
    • Proprietary

      • BIG
  • Editing the Wiki

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    • Timelines
    • Tooltips
    • Videos
    • Whitespace
• Discuss

  • Reporting Issues
  • Mailing Lists
  • Chat
• Explore

  • News
  • Events

    • Presentations
    • Conferences
    • Hackathons
  • Libraries

    • ImageJ Ops
    • ImageJ Common
    • ImageJ Legacy
    • ImageJA
    • SciJava
    • SCIFIO
    • ImgLib2

      • Getting Started
      • Accessors
      • Accessibles
      • Examples
      • Introductory Workshop
      • Advanced Workshop
      • ImgLib2 images in MATLAB
      • Benchmarks
      • FAQ
      • Developing ImgLib2
      • ImgLib2 Discussion
  • Software

    • NIH Image
    • ImageJ1
    • ImageJ2
    • Fiji