Re: [Freesurfer] mri_volsynth question

2020-09-10 Thread Nasiriavanaki, Zahra
boun...@nmr.mgh.harvard.edu> on behalf of Douglas N. Greve <mailto:dgr...@mgh.harvard.edu> Sent: Wednesday, September 9, 2020 6:23 PM To: freesurfer@nmr.mgh.harvard.edu<mailto:freesurfer@nmr.mgh.harvard.edu> <mailto:freesurfer@nmr.mgh.harvard.edu> Subject: Re: [Freesur

Re: [Freesurfer] mri_volsynth question

2020-09-10 Thread Nasiriavanaki, Zahra
u> on behalf of Douglas N. Greve <mailto:dgr...@mgh.harvard.edu> Sent: Wednesday, September 9, 2020 6:23 PM To: freesurfer@nmr.mgh.harvard.edu<mailto:freesurfer@nmr.mgh.harvard.edu> <mailto:freesurfer@nmr.mgh.harvard.edu> Subject: Re: [Freesurfer] mri_volsynth question Load $SUBJECTS_

Re: [Freesurfer] mri_volsynth question

2020-09-10 Thread Douglas N. Greve
Sent:*Wednesday, September 9, 2020 6:23 PM *To:*freesurfer@nmr.mgh.harvard.edu *Subject:*Re: [Freesurfer] mri_volsynth question Load $SUBJECTS_DIR/fsaverage/mri/brainmask.mgz into freeview and find the voxel where you want it to be centered. Then run mri_volsynth as you have below but add --del

Re: [Freesurfer] mri_volsynth question

2020-09-10 Thread Nasiriavanaki, Zahra
9, 2020 6:23 PM To: freesurfer@nmr.mgh.harvard.edu<mailto:freesurfer@nmr.mgh.harvard.edu> <mailto:freesurfer@nmr.mgh.harvard.edu> Subject: Re: [Freesurfer] mri_volsynth question Load $SUBJECTS_DIR/fsaverage/mri/brainmask.mgz into freeview and find the voxel where you want it to be centered. Then

Re: [Freesurfer] mri_volsynth question

2020-09-10 Thread Douglas N. Greve
glas N. Greve *Sent:*Wednesday, September 9, 2020 6:23 PM *To:*freesurfer@nmr.mgh.harvard.edu *Subject:*Re: [Freesurfer] mri_volsynth question Load $SUBJECTS_DIR/fsaverage/mri/brainmask.mgz into freeview and find the voxel where you want it to be centered. Then run mri_volsynth as you have below b

Re: [Freesurfer] mri_volsynth question

2020-09-10 Thread Nasiriavanaki, Zahra
, September 9, 2020 6:23 PM To: freesurfer@nmr.mgh.harvard.edu<mailto:freesurfer@nmr.mgh.harvard.edu> <mailto:freesurfer@nmr.mgh.harvard.edu> Subject: Re: [Freesurfer] mri_volsynth question Load $SUBJECTS_DIR/fsaverage/mri/brainmask.mgz into freeview and find the voxel where

Re: [Freesurfer] mri_volsynth question

2020-09-10 Thread Douglas N. Greve
, 02129 *From:* freesurfer-boun...@nmr.mgh.harvard.edu on behalf of Douglas N. Greve *Sent:* Wednesday, September 9, 2020 6:23 PM *To:* freesurfer@nmr.mgh.harvard.edu *Subject:* Re: [Freesurfer] mri_volsynth question Load

Re: [Freesurfer] mri_volsynth question

2020-09-10 Thread Nasiriavanaki, Zahra
of Douglas N. Greve Sent: Wednesday, September 9, 2020 6:23 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] mri_volsynth question Load $SUBJECTS_DIR/fsaverage/mri/brainmask.mgz into freeview and find the voxel where you want it to be centered. Then run mri_volsynth as you have

Re: [Freesurfer] mri_volsynth question

2020-09-09 Thread Douglas N. Greve
Load $SUBJECTS_DIR/fsaverage/mri/brainmask.mgz into freeview and find the voxel where you want it to be centered. Then run mri_volsynth as you have below but add --delta-crsf C R S 0 where C, R, S are the col, row, slice from the voxel you found in freeview On 9/9/2020 5:39 PM, Nasiriavanaki,

[Freesurfer] mri_volsynth question

2020-09-09 Thread Nasiriavanaki, Zahra
Hi I am trying to make a subcortical 5 mm sphere ROI around a talairach coordinate. I am using the below command, but when I visualize it, it doesn’t look at the correct location. I see the same question in forum (https://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg67295.html), I