Thanks Bruce. Please let me know your recommendations.

On Mar 16, 2017, at 4:18 PM, Bruce Fischl fischl@nmr.mgh.harvard.edu wrote:

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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