Dear life savers, headache relievers and brain science dreamers,
PROLOG:
I'm trying to separate out some regions from a .nii.gz file. I start with
a surface parcellation in .annot (Freesurfer land) that I convert to
EXAMPLE.nii.gz using mri_aparc2aseg.
THE GOAL: To get a .nii.gz file for each one of these regions. Using
fslmaths, I threshold the EXAMPLE.nii.gz file above & below the intensity
of that region & save as REGION_name.nii.gz.
THE PROBLEM: This method is working for the majority of the regions. But
many of the output REGION_name.nii.gz files are completely empty. They are
there in the original EXAMPLE.nii.gz but are lost in the thresholding
some(how/where).
THE SOLUTION: Your kind reply...
Thanks very much.
-Sam
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