Hi Fariha
The number of regions is based on the anatomy. You can combine them if
you like. The volume to use is probably the aparc+aseg.mgz, which is
easily convertible to .nii with mri_convert.
Also, you should use freeview not tkmedit (tkmedit has been deprecated
for many years)
cheers
Bruce
On Fri, 14 Dec 2018, Fariha
Muazzam wrote:
External Email - Use Caution
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 <fis...@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.muaz...@kics.edu.pk | Web: www.kics.edu.pk
>
>
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