You can also use mri_binarize with the --match flag. It does the same
thing, but you can give it multiple match values. There is also a
--ventricles option (excludes 4th ventricle).
doug
Bruce Fischl wrote:
> Hi Tommi,
>
> no, you need to also extract the left and right ventricles and the
> in
Hi Tommi,
no, you need to also extract the left and right ventricles and the
inferior lateral ventricles.
cheers
Bruce
On Wed, 8 Dec 2010 r...@nmr.mgh.harvard.edu
wrote:
>
> Thanks Bruce!
>
> However, as you suspected this does not seem to work: mri_extract_label
> mri/aseg.mgz 24 mri/mask_c
Thanks Bruce!
However, as you suspected this does not seem to work: mri_extract_label
mri/aseg.mgz 24 mri/mask_code24.mgz gives a tiny volume of a couple of
hundred voxels in the middle of the brain (part of 3rd ventricle). I
assume here that code 24 is the correct code for all CSF in aseg.mgz.
Hi Tommi
you can use mri_extract_label to pull out the labels you want, but the
sulcal CSF labels may not be great since the manual labeling that is the
basis of the aseg was done on only T1 images.
cheers
Bruce
On Wed, 8 Dec 2010
r...@nmr.mgh.harvard.edu wrote:
>
> Hi,
>
> We are trying to
Hi,
We are trying to create a CSF volume mask from structural MEMPRAGE T1 data
(we also have ME FLASH 5/30 ->PD if needed). We are interested in two CSF
compartments:
- "superficial" CSF outside grey matter and inside inner skull
- "deep" CSF inside ventricles
Is there a way to simply extract t
