Hi YXDragon! Coincidentally, I have been working on a package to do just that, which I have imaginatively-called “skan” (for SKeleton ANalysis). It runs lightning quick using Numba, and works with n-D skeletons. It’s available on pip (pip install skan) and conda-forge (conda install -c conda-forge skan). The source code is on github (github.com/jni/skan).
The interface is a little fiddly currently but you should be able to figure it out. The functions you want are skan.csr.skeleton_to_csgraph (produces a pixel-to-pixel graph in scipy.sparse.csr_matrix format) and skan.csr.summarise (produces a pandas DataFrame with nodes and arcs, including coordinates in the image, arc distances, and euclidean distances). You just need to provide the skeleton. I hope this helps! Feedback on the API is much appreciated! Juan. PS: Oh yeah, you might want to look at my Numba post, which described part of the development of this library: https://ilovesymposia.com/2016/12/20/numba-in-the-real-world/ On 18 May 2017, 1:08 PM +1000, imag...@sina.com, wrote: > Hi everyone: > I saw the newest version, require the networkx module. I find some > function to find shortest path from image. But I want to know if there is a > method to build a network from a skeleton image(2D/3D with arcs and nodes). I > wrote one, but in python. it runs very slowly... > yxdragon-imagepy > _______________________________________________ > scikit-image mailing list > scikit-image@python.org > https://mail.python.org/mailman/listinfo/scikit-image
_______________________________________________ scikit-image mailing list scikit-image@python.org https://mail.python.org/mailman/listinfo/scikit-image
