Hi
in fact, the wm intensities are mostly below 110 so i seeded control points
in the wm (across many slices) and then i run recon-all with only autorecon2.
at the end i notices that the problem still not fixed. according to
ReconAllDevTable section, the final surfaces (aseg.mgz, brain.finalsurfs.mgz,
wm.mgz, filled.mgz) are done at the autorecon2 step; Or should i run autorecon3
to fix the problem ?
Thanks
________________________________
De : Bruce Fischl <fis...@nmr.mgh.harvard.edu>
À : LAOUCHEDI MAKHLOUF <laouma...@yahoo.fr>
Cc : "freesurfer@nmr.mgh.harvard.edu" <freesurfer@nmr.mgh.harvard.edu>
Envoyé le : Jeudi 18 juillet 2013 15h31
Objet : Re: [Freesurfer] WM and pial surfaces problem
Hi Laouchedi
what are the intensities in the white matter in that region in the
brain.mgz? If significantly below 110, try sprinkling a few control
points there
cheers
BruceOn Thu, 18 Jul 2013, LAOUCHEDI MAKHLOUF wrote:
> Hi
> i run recon-all on a subject and when checking the surfaces, i noticed
> that a big part of the temporal part is badly
> segmented; this concerned WM as well as the grey matter. on the
> RecommendedReconstruction page, it is explained how to remove
> parts of non-pial structures considered as so, but not how to move the red
> surface to include missed wm and grey matter.
>
> thank you for help
>
>
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