Hi Claudia
can you describe the problems? And cc the list so that others can help?
thanks
Bruce
On Mon, 29 Apr 2013, Claudia Dacquino wrote:
Hi Bruce,I think wm.mgz it's accurate enough, but what you mean?
I'm trying to upload data, but I've problems with your server.
Cheers,
Claudia
2013/4/29 Bruce Fischl <fischl@nmr.mgh.harvard.edu>
Hi Claudia
it really depends on the individual case and what's causing the
exclusion. Does the wm.mgz look accurate? If so, you may have a
topological defect that is being fixed incorrectly. Usually we
focus on fixing the white boundary and that will also correct
the pial. You can set the expected gray matter intensities in
the xopts file, but that is rarely necessary and only if your
gray matter looks very different than the sequences we are used
to.
If you can't sort it out feel free to upload you data.
cheers
Bruce
On Mon, 29 Apr 2013, Claudia Dacquino wrote:
Hi Freesurfers,I have a question about pial editing.
I have some reconructions in which there's a lot of
grey matter excluded,
and consequently white metter too. I did correct
these images manually by
control points editing, and then autorecon2-cp
autorecon3, but some cortical
grey matter continues to not be included in the pial
surface, and I have
white matter areas that are still not included in
either the pial or white
matter boundaries.
Is there anyother ethods for adding grey matter in
the pial surfeces other
than editing control points (such as by editing
voxels to add grey matter),
or something like that?
Thanks for your help.
Claudia
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