Automatic segmentation and mask generation for multiple spots

Andy

2018 3 29

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Hi, so I have a grayscale image with multiple spots. I want to generate a mask containing multiple ROIs based on thresholding and apply it to subsequent images to monitor changes in intensity of the spots (immobilized).

Can someone point me in the right direction? I can't seem to find what I need without going into complicated particle tracking algorithms or ImageJ.

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Andy 2018-3-30

Thanks for the response and sorry I can't provide example right now. I just want to make 1 mask from 1 image containing many blobs. Then I apply it to subsequent images and get the intensity from each ROI of each stack.

I don't want to track, just simply plot the intensity across an image stack for each ROI.

Rik 2018-3-30

It sounds like you can just use a loop. There are more fancy (i.e. faster) solutions, but a loop should get it done. If you have no idea how to tackle this and you can't share an actual example, create a simple one that we can help you write the code for.

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