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napari

napari is a fast, interactive, multi-dimensional image viewer for Python. It’s designed for browsing, annotating, and analyzing large multi-dimensional images. It’s built on top of Qt (for the GUI), vispy (for performant GPU-based rendering), and the scientific Python stack (numpy, scipy). It includes critical viewer features out-of-the-box, such as support for large multi-dimensional data, and layering and annotation. By integrating closely with the Python ecosystem, napari can be easily coupled to leading machine learning and image analysis tools (e.g. scikit-image, scikit-learn, TensorFlow, PyTorch), enabling more user-friendly automated analysis.

A plugin called napari-imagej is currently being developed to enable use of ImageJ2 commands from the napari interface. Like other ImageJ2 Python integrations (e.g. CellProfiler), the napari-imagej plugin is built on PyImageJ.

Publication

doi:10.5281/zenodo.3555620