Exercise: Seeded watershed in Napari#

Start Napari and open the example image File > Open Samples > Napari > Cells (3D+2Ch).

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Use the menu Tools > Segmentation / labeling > Voronoi Otsu Labeling to segment the nuclei.

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Use the menu Tools > Segmentation / labeling > Seeded Watershed (scikit-image, nsbatwm) to segment the cells.

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Start Smooth labels (clesperanto) from the menu Tools > Segmentation post-processing. Hide all layers except the final cell segmentation. Change the contour of the cell segmentation layer to show the outlines of the segmented cells above the membrane channel.

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Vary the radius and see how the outlines change.

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Question#

What is a good radius for segmenting cells in this image properly?