as -- so I guess this is not quite a whole brain in VPNL?
Sorry, I'm a bit lost
Gina
> Message: 2
> Date: Thu, 29 Mar 2018 10:17:17 -0400
> From: "Douglas N. Greve" <dgr...@mgh.harvard.edu>
> Subject: Re: [Freesurfer] convert labels to volume in MNI?
> To: <
By using -reg $FREESURFER_HOME/average/mni152.register.dat you are
indicating that the input label is in fsaverage space. You need to have
a registration from your source space (VPNL) to the MNI152. If you have
a whole brain in VPNL, then you can run recon-all on it to generate
surfaces. Do
what is your freeview command line? In the mri_label2vol command below,
where does the label come from?
On 03/28/2018 01:11 PM, gj wrote:
> Hi,
>
> I loaded the 2mm MNI152 template and the mri_label2vol outputs in
> mricron, and I saw that the labels are completely outside the template.
> So, I
Hi,
I loaded the 2mm MNI152 template and the mri_label2vol outputs in
mricron, and I saw that the labels are completely outside the template.
So, I know now to use freeview rather than the deprecated tkmedit so I
can also load the original atlas labels to check against (using the 2mm
MNI152
how are you verifying that it is not in the right place? You should view
it on the 2mm MNI152 using freeview. Also, your label should be a label
in fsaverage space.
On 3/27/18 9:52 AM, gj wrote:
> Hi,
>
> Newbie questionI want to take FreeSurfer labels (from an atlas in
> fsaverage space)
Hi,
Newbie questionI want to take FreeSurfer labels (from an atlas in
fsaverage space) and convert it into a volumetric NIFTI mask. I ran the
following command, but I must be missing something because the output is
not in the right space (far too posterior):
