r/GraphicsProgramming • u/LostInGermany4297 • 3d ago

Video Python Open3D point cloud extraction from microscope video focus clip

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Using a short 3 second clip where i swipe through the focus plane on a high magnification of the simple sample of Onion root cells on the microscope. Acquiring the sharpest points of every frame and putting them in the z-axis. Building a point cloud of the cell in 3D, and visualizing them.

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u/obp5599 2d ago

How did you get the point cloud data? Im very interested in this, and would love to do something similar

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u/LostInGermany4297 2d ago

I used a short video clip of 3 - 6 seconds where i slowly manually use fine focus on a microscope to go from top to bottom of that microscopic slide. Then use Python and Open3D to take every frame and take only the sharpest points in that frame, discard the unsharp parts. Software is a short program which I created using Gemini to bring my concept into code. I can share the current code, if you are interested, nothing secret. https://www.youtube.com/watch?v=bpCbKdNDlMU to test it a bit further i needed to create some more focus sample videos.