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Minimal path extraction using the fast marching method

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scikit-mpe is a package for extracting a minimal path in N-dimensional Euclidean space (on regular Cartesian grids) using the fast marching method.



pip install -U scikit-mpe


Here is a simple example that demonstrates how to extract the path passing through the retina vessels.

from matplotlib import pyplot as plt

from import retina
from skimage.color import rgb2gray
from skimage.transform import rescale
from skimage.filters import sato

from skmpe import mpe

image = rescale(rgb2gray(retina()), 0.5)
speed_image = sato(image)

start_point = (76, 388)
end_point = (611, 442)
way_points = [(330, 98), (554, 203)]

path_info = mpe(speed_image, start_point, end_point, way_points)

px, py = path_info.path[:, 1], path_info.path[:, 0]

plt.imshow(image, cmap='gray')
plt.plot(px, py, '-r')

plt.plot(*start_point[::-1], 'oy')
plt.plot(*end_point[::-1], 'og')
for p in way_points:
    plt.plot(*p[::-1], 'ob')



The full documentation can be found at




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