squidpy.im.SegmentationWatershed.segment

SegmentationWatershed.segment(img, **kwargs)

Segment an image.

Parameters:

img (ndarray[tuple[Any, ...], dtype[Any]] | ImageContainer) – High-resolution image.
layer – Image layer in img that should be processed. If None and only 1 layer is present, it will be selected. Only used when img is squidpy.im.ImageContainer.
kwargs (Any) – Keyword arguments for the underlying model.

Return type:

Returns:

Segmentation mask for the high-resolution image of shape (height, width, z, 1).

Raises:

ValueError – If the number of dimensions is neither 2 nor 3.
NotImplementedError – If trying to segment a type for which the segmentation has not been registered.