Hi Bruce,

Thank you for your reply.

I am sending now a file called 013.tar.gz via ftp. And this is not the worst...there are other with more regions that have not been considered in the segmentation process. I would like to know how could I cope with GM editions, as I am doing with control points with WM.

Yours sincerely,

Rosalia

On Tue, Dec 11, 2018 at 5:17 PM Bruce Fischl <fischl@nmr.mgh.harvard.edu> wrote:

Hi Rosalia

if you upload an example with voxel coordinates of where you see problems
we will take a look

cheers
Bruce
On Tue, 11 Dec 2018, Rosalia Dacosta Aguayo wrote:

>
>         External Email - Use Caution        
>
> Dear Free Surfer team and Bruce,
>
> I have been doing well editing the skull stripping, and using control points
> to improve white matter segmentation. Furthermore, the few participants I
> had problems with due to large ventricles were solved using the flag you
> recommended me to use. I am very grateful for all your help.
>
> However, I am facing another problem I thought I could solve using control
> points as well but this is worsening things instead of improving them. I
> refer to grey matter segmentation. I have found that several participants,
> more than I would like, are having problems with grey matter segmentation in
> the ventral temporal lobes and in the occipital lobe as well.
>
> I wonder if you could kindly help me with this, telling me how I could solve
> this problem so GM and WM segmentation are fine.
>
> Yours sincerely,
> Rosalia
>
>
>
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