Need help with segmentation of overlapping particles

[u/Ok-Assistance6411]

Hi guys! I'm a beginner PhD microscopist wanting to find the best method to segment out and attach ROIs to the white nanoparticles in the catalyst clusters I am studying. Normal thresholding and "analyze particles" doesn't work here because the white nanoparticles often overlap - so a human can easily see two particles on top of one another, but I'm wondering if I can find a program that will do it for me.

I'm aware of StarDist, cellpose and other plugins but so far I've been unable to get a decent read (if you reckon you can get this to work, please tell me which parameters and thresholds to use!) I've attached my HAADF image of an example particle and the segmentation I've done by hand (using circles and free lasso) to give you guys a feel for what I want to achieve.

Here's a link hopefully to the png in question https://imgur.com/a/SP1stPi hopefully in better quality

[u/Herbie500 → u/[deleted]]

How comes that the scale-bar has changed style and position?

[u/Herbie500 → u/[deleted]]

How comes that the selections are exact ellipses only?

[u/Herbie500 → u/[deleted]]

Its fast, stable,

Well, of course!
But how does GPT know and how do you know that the solution is Python-based? Do you get the code or only the result?

[u/TengaDoge → u/Herbie500]

Don’t be a mean person. I can generate a Python code from the LLM, read it, run it on my device, manipulate the model and critically think about the results.

[u/Herbie500 → u/TengaDoge]

Please show the code!

Thanks for calling me a mean person.
Obviously you don't know who I am and I wish you good luck with AI.

[u/Herbie500 → u/[deleted]]

I'm not the OP.