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Contents:

  • Introduction
  • Getting started
  • Tutorials
  • Concepts
  • Advanced
    • ImageJ
    • Exporting images
    • Exporting annotations
    • StarDist
    • Command line
  • Scripting
  • Reference
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AdvancedΒΆ

  • ImageJ
    • Finding ImageJ commands
    • Sending image regions to ImageJ
    • Accessing ImageJ plugins
    • Sending objects to QuPath
    • Running macros
  • Exporting images
    • Export commands
    • Export by scripting
  • Exporting annotations
    • Shapes
    • Binary & labeled images
  • StarDist
    • Building QuPath with TensorFlow
    • Getting pretrained models
    • Detecting nuclei
    • Customizing detection
    • Differences from StarDist Fiji
  • Command line
    • Viewing command line options
    • Subcommands
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