Segmenting z-stacks for 3D model

Posted by Fly Guy on Jul 03, 2017; 10:25am
URL: http://imagej.273.s1.nabble.com/Segmenting-z-stacks-for-3D-model-tp5019024.html

Hello ImageJers’

I have a set of z-stacks of adult Drosophila brains where some of the cells (neural stem cells and neurons) are GFP-positive.
There is also a bit of GFP+ background.
I want to segment and reconstruct a 3D model of the GFP+ cells only (obviously without the background). Then I want to count the cells and measure their volume.
After fiddling around with binary masks, 3D ROI and 3D segmentation, I am still at a loss for a ‘standardised’ way.

Can someone kindly suggest a plugin etc or a methodology to solve the problem?

Thanks and Best
FlyGuy






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With thanks and Best Wishes
Fly Guy
Twitter: @flyguy






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