lucre | Let people pay you for any or no reason | Chat library
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kandi X-RAY | lucre Summary
Let people pay you for any or no reason.
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QUESTION
I am relatively new to image analysis and I need to extract the xy and z coordinates of the pixels that compose several objects within my image. The image is actually a stack where all the objects of interest have been segmented and are distinguished by a label (integer).
I am having some issues to find a smart and not too much expensive method for extracting all the coordinates of one object and save them in three different lists for x, y and z to compute further computations (ideally, I am planning to fit an ellipsoid for each object)... and iterate the whole thing for each object. Here is an example of one slice of my stack.
I was looking into numpy and skimage mainly and a bit scipy (the find_object() function), but I am honestly quite lost. Do you know how I could do that in an effective way using a python library? Thank you!
Lucre
...ANSWER
Answered 2021-Feb-17 at 02:29You can use skimage.measure.regionprops
. Even though the documentation says .coords
is 2D, it actually works fine for 3D data. So you would do something like:
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