This is done automatically with recon-all. It creates aparc+aseg.mgz
using mri_aparc2aseg. The ribbon is used to constrain the aparc in
aparc+aseg to be in the ribbon defined by the surfaces instead of the
ribbon defined by the aseg.
doug
Graham Wideman wrote:
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
_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
--
Douglas N. Greve, Ph.D.
MGH-NMR Center
[EMAIL PROTECTED]
Phone Number: 617-724-2358
Fax: 617-726-7422
In order to help us help you, please follow the steps in:
surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
