Hello!
Firstly I must admit the title it is not good. I hope that you can help me solving my problem and chaging the title.
After doing image processing I got this output:

As you see in detail, there points which has irregular shapes:

My final goal is from this:

Achieving something like this:

I don't know how to do it. If I need to filter/smoothe the contour lines and then apply a rectangle shape, for instance, or if there is a way to go straight forward without applying any filter.
During the image process I was able to collect some keypoints, as you can see, When I plotted them they are in between contours on the center of the irregular shape. The figure show them bigger than they really are, because it was created from matplotlib.

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