multi phase segmentation marker-controlled watershed

Posted by PatrIM on
URL: http://imagej.273.s1.nabble.com/multi-phase-segmentation-marker-controlled-watershed-tp5023107.html

Hi
I am working with a 3D image of a soil which contains 4 different materials.
I would like to segment it in 4 phases. I read that watershed works well so
I am trying to use  marker-controlled watershed, the one according with its
description requires

-The Input image: a 2D or 3D grayscale image to flood, usually the gradient
of an image.
-The Marker image: an image of the same dimensions as the input
containing the seed points or markers as connected regions of voxels, each
of them with a different label. They correspond usually to the local minima
of the input image, but they can be set arbitrarily.

For the input I generated a gradient using morpholobj/morphological filters
(3D)

But for the Marker I am having problems. I don’t know how to generate an
appropriate 3D image. Making use of global segmentation I generated an image
of 4 phases, expecting it could work as my marker. However giving this image
and my gradient to marker-controlled watershed it gives me back as a result
the marker 3D image.

Do you how can I generate and appropriate marker? Or how can I obtain my
segmentation in 4 phases?

Thanks in advance




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