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.
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.
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skills use pyimagej-fiji-bridge