probably not, although it's hard to say. If you upload the whole subject
dir I'll take a look. How does the aseg look?
On Thu, 14 Feb 2013, Rongxiang
Tang wrote:
Hi Bruce,
I checked the skullstrip stage using this command:
tkmedit subjectid brainmask.mgz -aux T1.mgz -surfs....
and both of the brainmask and T1 images look fine.... the wm.mgz is problema
tic, with some area missing.....
I was wondering if I need to manually adding control points to solve the pro
blem.
Thanks,
Catherine
____________________________________________________________________________
From: Bruce Fischl <[email protected]>
To: Rongxiang Tang <[email protected]>
Sent: Thursday, February 14, 2013 2:03 PM
Subject: Re: [Freesurfer] talairach transformation troubleshooting problem
Hi Catherine
that looks like something went wrong in the surface recon, not in the
talairaching. Maybe a skullstrip problem? You need to investigate. Also,
please cc the list so that others can answer!
thanks
Bruce
On Thu, 14 Feb 2013, Rongxiang Tang wrote:
> Hi Bruce,
>
> I attached two images...one is the target view and the other is the
moveable
> view.
>
> Thanks,
> Catherine
>
>
>___________________________________________________________________________
_
> From: Bruce Fischl <[email protected]>
> To: Rongxiang Tang <[email protected]>
> Cc: "[email protected]" <[email protected]>
> Sent: Thursday, February 14, 2013 1:33 PM
> Subject: Re: [Freesurfer] talairach transformation troubleshooting problem
>
> Hi Catherine
>
> can you send us an image of what you are looking at?
>
> thanks
> Bruce
> On Thu, 14 Feb 2013,
> Rongxiang Tang wrote:
>
> > Dear All,
> >
> > When I was checking the talairach transformation output, I noticed that
> some of the white matter was not included inside
> > the green line. Instead of drawing the green line to include all of the
> white matter of the whole brain, it somehow only
> > includes the bottom half of the white matter of the brain.
> >
> > Is there a way to fix that?
> >
> > Thanks,
> > Catherine
> >
> >
>
>
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