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PyImageJ

PyImageJ is a Python wrapper for ImageJ2. It also supports the original ImageJ via ImageJ2’s legacy bridge.

PyImageJ provides a set of wrapper functions for integration between ImageJ and Python. A major advantage of this approach is the ability to combine ImageJ with other tools available from the Python software ecosystem, including NumPy, SciPy, scikit-image, CellProfiler, OpenCV, ITK and more.

For further details about PyImageJ, including installation and usage instructions, please see the project page on PyPI:

Citing

To cite PyImageJ, for the moment, you can use:

doi:10.5281/zenodo.5537065

A PyImageJ paper is forthcoming.