Posted by
gckujoth on
Jul 31, 2014; 3:01am
URL: http://imagej.273.s1.nabble.com/Convert-montage-with-ROIs-to-stack-tp5008989.html
Hello,
I have montages of MRI images with a large number of ROIs created for
specific white matter structures and I have used these for measurements
in ImageJ. I created the ROIs on the montage image because I found it
helpful to be able to see multiple slices to improve slice-to-slice
consistency in delineating a given structure.
I now wish to convert the montage file with its ROIs to an image stack
that also has the ROIs. (Ultimately, I wish to use the same ROIs
imported into other software for additional analyses and that software
will need to use the image stack.)
Is it possible to translate/convert the ROI coordinates from the montage
to their proper slice positions in the stacked image?
I can easily make an image stack from the montage but the ROIs don't
come along. I also tried to make overlays from the ROIs but these too
fail to survive the conversion of montage to stack. I know I can
flatten/draw the ROIs onto the montage panels before making the stack;
that gives me a stack file with the ROI locations annotated but the ROIs
are not editable.
I'm hoping that I don't have to recreate all the ROIs on the image stacks.
Thanks for any help that anyone can provide.
Greg
--
Gregory Kujoth, Ph.D.
Assistant Scientist
Department of Neurological Surgery
University of Wisconsin
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