Hi Bruce,
Thanks again for your valuable information. I was trying to click on my "orig
surface" button in the interface but it is not active. Is there a way that I
can enable this option/button? I see more buttons are not active. How I can fix
this?
Second, using tkmedit, how I can see the same point that I choose in one view
for example the coronal view in another view example horizontal view? How I can
select this point in one view and make it visible in another view?
Thanks,
Antonella
________________________________
From: Bruce Fischl <fis...@nmr.mgh.harvard.edu>
To: Antonella Kis <ator...@yahoo.com>
Cc: "freesurfer@nmr.mgh.harvard.edu" <freesurfer@nmr.mgh.harvard.edu>
Sent: Wednesday, July 27, 2011 4:35 PM
Subject: Re: [Freesurfer] Corrections for the Pial surface
Hi Antonella,
1. Can you load the lh.orig or rh.orig surface explicitly and see if it is
shown? Is the "orig surface" button clicked in the interface?
2. the hippocampus and amygdala are not neocortical structures and shouldn't be
included in the surfaces (in fact, the surfaces in those regions are somewhat
arbitrary as they don't have the laminar architecture we are expecting).
cheers
Bruce
On Wed, 27 Jul 2011, Antonella Kis wrote:
> Hi Bruce,
>
> Thank again for your advice. I am not sure about the data collection but I
> will find out soon. In the mean time I have two more questions:
> 1). The FS tutorial shows for the surface outlines (by loading the -surfs)
> three line: the yellow indicating the white surface, the red for
> the pial and a green line for the orig data. When I plot the surfs I have
> only the yellow and red line. Can I get the green line somehow?
> 2). I suppose the two important brain structures, amygdala and hippocampus
> must be included in the pial surface as a grey matter (I hope I am
> right) .
> If they are not enclosed in the pial surface is there a way to resolve this
> issue? How I should edit the pial surface in this case? How
> important is to have them enclosed for my cortical thickness studies and for
> the GLM group analysi?
>
> Thank you very much.
> Antonella
>
>
>
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