Separating intracellular objects from extracellular objects

Posted by María Victoria Pepe on
URL: http://imagej.273.s1.nabble.com/Separating-intracellular-objects-from-extracellular-objects-tp5021479.html

Hi

I´m studying efferocytosis of apoptotic cells by epithelial cells, for
which I´m using the *3D Objects Counter* tool. I make a map of the
apoptotic cell channel and then, I merge this map with the reslice of the
epithelial cells channel. Then I decide if the object in the map is inside
or outside the cell.  This is a slow process but generally it
works. But there are some problems when I have two objects close to each
other, one outside and one inside, because sometimes they are consider like
one only object.
How can I generate a solid mask using the reslice of the epithelial cells
channel to use it to separate intracellular objects from extracellular
objects?


I attached one image as an example.



Thanks for your time

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