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pyimagej-fiji-bridge

Python bridge to ImageJ2/Fiji enabling macro execution, plugin calls (Bio-Formats, TrackMate, Analyze Particles), bidirectional NumPy↔ImagePlus/ImgLib2 data exchange, and ImageJ Ops from Python. Use for automating Fiji-specific workflows headlessly from Python scripts. Use scikit-image instead for pure Python pipelines that do not require Fiji plugins; use napari for interactive visualization.

jaechang-hits
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jaechang-hits
更新於 2/18/2026
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quick start

Installation and usage

Python bridge to ImageJ2/Fiji enabling macro execution, plugin calls (Bio-Formats, TrackMate, Analyze Particles), bidirectional NumPy↔ImagePlus/ImgLib2 data exchange, and ImageJ Ops from Python. Use for automating Fiji-specific workflows headlessly from Python scripts. Use scikit-image instead for pure Python pipelines that do not require Fiji plugins; use napari for interactive visualization.

安裝
$ install --globalskills.sh
使用

安裝後,您可以通過在終端運行以下命令來使用此技能:

skills use pyimagej-fiji-bridge