Of course, you are right...It fits perfectly now. Thank you so much!
Best,
Anders
2012/7/4 Douglas Greve
> Where did rh.v1.probl.label come from? The way you call mri_label2vol, it
> should be in fsaverage space. If it is in an individual space, then the
> registration is wrong. Try running mn
Where did rh.v1.probl.label come from? The way you call mri_label2vol,
it should be in fsaverage space. If it is in an individual space, then
the registration is wrong. Try running mni152reg to create a
registration from the individual to mni152, then use that reg instead.
doug
On 7/4/12 5:32
Dear Doug,
I have problem similar to this:
I am trying to convert V1 labels from the Hinds method to volumes and
transform them to MNI152 space for use in FSL.
I tried using this command:
mri_label2vol --label rh.v1.prob.label --reg
$FREESURFER_HOME/average/mni152.register.dat --temp MNI152_T1_2m
This fixed the problem, thanks!
> The problem appears to be with the label itself. Try this conversion:
>
> mri_label2label --srclabel lh.entorhinal.label --s fsaverage --regmethod
> surface --trglabel lh.entorhinal.new.label --hemi lh
>
> Also, you might want to use the entorhinal label define in
The problem appears to be with the label itself. Try this conversion:
mri_label2label --srclabel lh.entorhinal.label --s fsaverage --regmethod
surface --trglabel lh.entorhinal.new.label --hemi lh
Also, you might want to use the entorhinal label define in the
aparc+aseg since it fills in the rib
Hi Doug,
Thanks for the reply. This cmd makes it slightly better I guess, but still
definetely off target. It seems to be shift downward, towards inferior,
and therefore sometimes outside the skull. Any other ideas?
Linda
> The way the reg is set up, the targ is your mask. Try this cmd:
> mri_vol2
The way the reg is set up, the targ is your mask. Try this cmd:
mri_vol2vol --targ lh_entorhinal.nii.gz --mov MNI152_T1_2mm.brain.nii.gz
--o lh_entorhinal_MNI.nii.gz --reg $FREESURFER_HOME/average/mni152.register.dat
--inv
doug
Linda Douw wrote:
> Hi all,
>
> I am trying to transform some labels
Hi all,
I am trying to transform some labels from the aparc to masks in MNI space.
Ideally, I would like to do this for each subject in my study individually
(using their own rawavg.mgz and labels), but for now I started out with
fsaverage. I first converted the label file into a nifti:
mri_label
