Folks:
I'm hoping that there's an aparc --> voxels program. That program might be
mri_aparc2aseg, but I wanted to check first if that's the best way to go
and whether there are particular options to know about and so on.
Basically I want a program that inputs a parcellation, and outputs a label
mri where each voxel that's fully or partially between the white and pial
surface gets labelled with the parcellation label from the vertex (white or
pial) that it's closest to. (A variation that would also work for our
purpose would label voxels even beyond that, possibly all voxels).
This seems like it's probably already been done, hence my asking.
I'm thinking that *might* be what mri_aparc2aseg does... but I'm not clear
what the wiki description is trying to say:
https://surfer.nmr.mgh.harvard.edu/fswiki/mri_5faparc2aseg?action=highlight&value=aparc
First, it appears from Example 1 that mri_aparc2aseg does something
interesting when run with basically no specific command line arguments, so
presumably using default input files. But then what is the purpose of
--ribbon?
Then the description talks about the automatic segmentation volume as
though it's an input separate from the ?h.ribbon, yet there are no
parameters related to that. And finally the --noribbon flag is mentioned as
turning something off, but it's not clear what it's turning off.
Bottom line: I'd appreciate some clarification as to which program does
what I want, and if it's mri_aparc2aseg, then what options are appropriate
to do the simple version of the task where it ignores existing aseg and ribbon.
Thanks,
Graham
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