skimage2.segmentation.find_boundaries#

skimage2.segmentation.find_boundaries(label_img, connectivity=1, mode='thick', background=0)[source]#

Return bool array where boundaries between labeled regions are True.

Parameters:
label_imgarray of int or bool

An array in which different regions are labeled with either different integers or boolean values.

connectivityint, in {1, …, label_img.ndim}, optional

A pixel is considered a boundary pixel if any of its neighbors has a different label. connectivity controls which pixels are considered neighbors. A connectivity of 1 (default) means pixels sharing an edge (in 2D) or a face (in 3D) will be considered neighbors. A connectivity of label_img.ndim means pixels sharing a corner will be considered neighbors.

modestring in {‘thick’, ‘inner’, ‘outer’, ‘subpixel’}

How to mark the boundaries:

  • thick: any pixel not completely surrounded by pixels of the same label (defined by connectivity) is marked as a boundary. This results in boundaries that are 2 pixels thick.

  • inner: outline the pixels just inside of objects, leaving background pixels untouched.

  • outer: outline pixels in the background around object boundaries. When two objects touch, their boundary is also marked.

  • subpixel: return a doubled image, with pixels between the original pixels marked as boundary where appropriate.

backgroundint, optional

For modes ‘inner’ and ‘outer’, a definition of a background label is required. See mode for descriptions of these two.

Returns:
boundariesarray of bool, same shape as label_img

A bool image where True represents a boundary pixel. For mode equal to ‘subpixel’, boundaries.shape[i] is equal to 2 * label_img.shape[i] - 1 for all i (a pixel is inserted in between all other pairs of pixels).

Examples

>>> labels = np.array([[0, 0, 0, 0, 0, 0, 0, 0, 0, 0],
...                    [0, 0, 0, 0, 0, 0, 0, 0, 0, 0],
...                    [0, 0, 0, 0, 0, 5, 5, 5, 0, 0],
...                    [0, 0, 1, 1, 1, 5, 5, 5, 0, 0],
...                    [0, 0, 1, 1, 1, 5, 5, 5, 0, 0],
...                    [0, 0, 1, 1, 1, 5, 5, 5, 0, 0],
...                    [0, 0, 0, 0, 0, 5, 5, 5, 0, 0],
...                    [0, 0, 0, 0, 0, 0, 0, 0, 0, 0],
...                    [0, 0, 0, 0, 0, 0, 0, 0, 0, 0]], dtype=np.uint8)
>>> find_boundaries(labels, mode='thick').astype(np.uint8)
array([[0, 0, 0, 0, 0, 0, 0, 0, 0, 0],
       [0, 0, 0, 0, 0, 1, 1, 1, 0, 0],
       [0, 0, 1, 1, 1, 1, 1, 1, 1, 0],
       [0, 1, 1, 1, 1, 1, 0, 1, 1, 0],
       [0, 1, 1, 0, 1, 1, 0, 1, 1, 0],
       [0, 1, 1, 1, 1, 1, 0, 1, 1, 0],
       [0, 0, 1, 1, 1, 1, 1, 1, 1, 0],
       [0, 0, 0, 0, 0, 1, 1, 1, 0, 0],
       [0, 0, 0, 0, 0, 0, 0, 0, 0, 0]], dtype=uint8)
>>> find_boundaries(labels, mode='inner').astype(np.uint8)
array([[0, 0, 0, 0, 0, 0, 0, 0, 0, 0],
       [0, 0, 0, 0, 0, 0, 0, 0, 0, 0],
       [0, 0, 0, 0, 0, 1, 1, 1, 0, 0],
       [0, 0, 1, 1, 1, 1, 0, 1, 0, 0],
       [0, 0, 1, 0, 1, 1, 0, 1, 0, 0],
       [0, 0, 1, 1, 1, 1, 0, 1, 0, 0],
       [0, 0, 0, 0, 0, 1, 1, 1, 0, 0],
       [0, 0, 0, 0, 0, 0, 0, 0, 0, 0],
       [0, 0, 0, 0, 0, 0, 0, 0, 0, 0]], dtype=uint8)
>>> find_boundaries(labels, mode='outer').astype(np.uint8)
array([[0, 0, 0, 0, 0, 0, 0, 0, 0, 0],
       [0, 0, 0, 0, 0, 1, 1, 1, 0, 0],
       [0, 0, 1, 1, 1, 1, 0, 0, 1, 0],
       [0, 1, 0, 0, 1, 1, 0, 0, 1, 0],
       [0, 1, 0, 0, 1, 1, 0, 0, 1, 0],
       [0, 1, 0, 0, 1, 1, 0, 0, 1, 0],
       [0, 0, 1, 1, 1, 1, 0, 0, 1, 0],
       [0, 0, 0, 0, 0, 1, 1, 1, 0, 0],
       [0, 0, 0, 0, 0, 0, 0, 0, 0, 0]], dtype=uint8)
>>> labels_small = labels[::2, ::3]
>>> labels_small
array([[0, 0, 0, 0],
       [0, 0, 5, 0],
       [0, 1, 5, 0],
       [0, 0, 5, 0],
       [0, 0, 0, 0]], dtype=uint8)
>>> find_boundaries(labels_small, mode='subpixel').astype(np.uint8)
array([[0, 0, 0, 0, 0, 0, 0],
       [0, 0, 0, 1, 1, 1, 0],
       [0, 0, 0, 1, 0, 1, 0],
       [0, 1, 1, 1, 0, 1, 0],
       [0, 1, 0, 1, 0, 1, 0],
       [0, 1, 1, 1, 0, 1, 0],
       [0, 0, 0, 1, 0, 1, 0],
       [0, 0, 0, 1, 1, 1, 0],
       [0, 0, 0, 0, 0, 0, 0]], dtype=uint8)
>>> bool_image = np.array([[False, False, False, False, False],
...                        [False, False, False, False, False],
...                        [False, False,  True,  True,  True],
...                        [False, False,  True,  True,  True],
...                        [False, False,  True,  True,  True]],
...                       dtype=bool)
>>> find_boundaries(bool_image)
array([[False, False, False, False, False],
       [False, False,  True,  True,  True],
       [False,  True,  True,  True,  True],
       [False,  True,  True, False, False],
       [False,  True,  True, False, False]])