Hi Padma
wow, lots of things making this one hard! Low gray/white contrast, low bandwidth/high distortion, noisy, pathology and I'm guessing this was a contrast-enhanced scan (Gad?) as the vasculature and dura are very bright. This latter issue is making things hard as the partial volume of dura with gray matter looks a lot like wm in many places, causing segmentation errors and big topological defects. I'm trying some things on it and will have some recommendations soon, but I expect it will require a fair amount of manual editing (like a few hours).
cheers Bruce
On Thu, 16 Mar 2017, padma wrote:
Hi,
I’m trying to get pial and wm surfaces for a subject (who has some clinical wm related problems). They were imaged (T1-MPRAGE at 3T) at their imaging center not here at Martinos Center. The gray-white contrast doesn’t look as good as the healthy volunteers that I imaged in the 3T at the Martinos Center.
My question is — I can’t figure out where to start repairing the subject’s pial and wm surfaces.
I wonder if someone could suggest how to proceed.
I’ve ftp/uploaded the freesurfer output to surfer.nmr (PT001_from_padma.tar.gz)
Thanks for your help, Cheers, —Padma
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