Posted by
Citron, Bruce on
URL: http://imagej.273.s1.nabble.com/How-to-select-object-volume-in-3d-stack-tp4999044.html
In a single slice, I can easily: 1. Threshold, then 2. Use the wand tool to
select an irregular region of interest, e.g., an irregularly shaped cell in
a micrograph.
I am having trouble doing this for a 3d confocal stack. I can threshold so
that in all slices, the cell is all red.
How would I then perform the equivalent of the wand tool selections so
that all of the cell, in each z-slice, would be outlined and selected?
It would be like a seed fill, where all of the connected thresholded voxels
are connected into an irregular 3d ROI.
I would then want to determine volume and mean intensity.
I usually want to ignore other cells in the same image, but I would also be
interested in a 3d particle analysis with count, volumes and mean
intensities.
I tried Yawi3d, but I couldn¹t seem to get it to do what I wanted.
Thank you,
Bruce
--
Bruce A. Citron, Ph.D., Bay Pines VA
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