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June 23, 2022 16:02
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find edge of a label in python
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| import napari | |
| import numpy as np | |
| import scipy.ndimage as ndi | |
| SIZE = 42 | |
| # small circle | |
| circle = np.linalg.norm( | |
| np.indices(dimensions=(SIZE, SIZE)) - (SIZE / 2), axis=0 | |
| ) < SIZE / 4 | |
| # find edge of circle | |
| edt = ndi.distance_transform_edt(circle) | |
| edge = np.logical_and(edt < 2, edt != 0) | |
| # view in napari | |
| viewer = napari.Viewer() | |
| viewer.add_image(edge) | |
| viewer.add_image(edt) | |
| viewer.add_image(circle) | |
| viewer.text_overlay.text = 'circle -> edt -> edge' | |
| viewer.text_overlay.font_size = 20 | |
| viewer.text_overlay.visible = True | |
| viewer.grid.shape = (1, 3) | |
| viewer.grid.enabled = True | |
| napari.run() | |
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