Hi Bruce

I am working on segmentation of brain regions. I wanted to know:

1. If it is possible that I could get brain segmented into 8 regions or maybe 20, because when I segmented using recon-all command, I got segmentation of 45 regions ?

2. I was looking at the capability of generating my own atlas using tkmedit, but I was stuck at that as well.

3. Plus I don't understand which is the label image. I use the command tkmedit subject_name image -aseg command to view the segmentations. The aseg.mgz alone volume does not show all the segmented regions. If I want a single volume that has the labels, how would I get that. I eventually want a .nii label volume and .nii original volume

Thank You

On Thu, Dec 13, 2018 at 8:13 PM Bruce Fischl <fischl@nmr.mgh.harvard.edu> wrote:

Hi Fariha

can give us more details? How would you like to customize them? I think the
answer is probably no, but I'm not sure I understand what you are trying to
do
cheers
Bruce

On Wed,
12 Dec 2018, Fariha Muazzam wrote:

>
> External Email - Use Caution
>
> Hi
>
> I am working in Freesurfer for subcortical segmentation of brain, I did segmentation of a volume and
> I got around 45 regions. Is it possible that I could customize the regions I want or number of
> segments that I want?
>
> Thank You
> Regards
>
> Fariha Muazzam
> Research Officer
>
> --------------------------------------------------------------------------
> Al-Khawarizmi Institute of Computer Science (KICS)
>
> University of Engineering and Technology (UET), Lahore
>
> Email: fariha.muazzam@kics.edu.pk | Web: www.kics.edu.pk
>
>
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