> Date: Tue, 3 Sep 2013 11:07:36 -0400
> From: greve@nmr.mgh.harvard.edu
> To: freesurfer@nmr.mgh.harvard.edu
> Subject: Re: [Freesurfer] FW: No brain tissue after recon-all all
>
>
> Yes, that is just some eyeball that has not been stripped. It is ok as
> long as it does not affect the surfaces.
> doug
>
>
> On 09/03/2013 10:54 AM, pablo najt wrote:
> > Hi Doug,
> > Thank you very much for your output about my output files. Yes, I
> > understand that these images are skull stripped. But since there are
> > possibilities of error in the skull stripping process I was concern
> > about extra no brain tissue being included in the output.
> >
> > I think the location of the tissue I was referring was mistaken. To
> > make it clearer I have circled (in red) the specific area in the
> > images attached I have concerns about not being brain tissue.
> >
> > I noticed that this repeats in several other of my subjects and I
> > wanted to make sure it is fine.
> >
> > Best,
> > Pablo
> >
> >
> > > Date: Tue, 3 Sep 2013 09:50:06 -0400
> > > From: greve@nmr.mgh.harvard.edu
> > > To: freesurfer@nmr.mgh.harvard.edu
> > > Subject: Re: [Freesurfer] No brain tissue after recon-all all
> > >
> > >
> > > Hi Pablo, this is a skull stripped image. In the human brain there
> > is no
> > > brain tissue ventral to the orbital frontal areaso any tissue there has
> > > been stripped away.
> > > doug
> > >
> > >
> > > On 09/02/2013 12:49 AM, pablo najt wrote:
> > > >
> > > > Dear FS experts,
> > > > I have a doubt about a potential registration problem after running
> > > > recon-all -all. I noticed that one of the image outcome when opened
> > > > with tkmedit shows no-brain tissue (perhaps eye tracts) ventral to
> > > > orbitofrontal areas. I have attached snapshots to illustrate the
> > image.
> > > > I would greatly appreciate your output on this since I have no
> > > > experience with FS and I am not sure what to expect. I would like to
> > > > enquire whether I should be concerned about this image or if this is
> > > > not a problem.
> > > >
> > > > Many thanks,
> > > > Pablo
> > > >
> > > >
> > > > _______________________________________________
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> > > > Freesurfer@nmr.mgh.harvard.edu
> > > > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
> > >
> > > --
> > > Douglas N. Greve, Ph.D.
> > > MGH-NMR Center
> > > greve@nmr.mgh.harvard.edu
> > > Phone Number: 617-724-2358
> > > Fax: 617-726-7422
> > >
> > > Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
> > > FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2
> > > www.nmr.mgh.harvard.edu/facility/filedrop/index.html
> > > Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/
> > >
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> > >
> > >
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> >
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>
> --
> Douglas N. Greve, Ph.D.
> MGH-NMR Center
> greve@nmr.mgh.harvard.edu
> Phone Number: 617-724-2358
> Fax: 617-726-7422
>
> Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
> FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2
> www.nmr.mgh.harvard.edu/facility/filedrop/index.html
> Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/
>
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