I'm not entirely sure how tksurfer is sampling from the volume to the
surface. mri_vol2surf is the gold standard, so use that.
doug
Xinian Zuo wrote:
> Hey Doug,
>
> Following your suggestions, I ran the command below:
>
> mri_vol2surf --mov data.nii.gz --reg
> ${FREESURFER_HOME}/average/mni152.register.dat --hemi rh --o
> ./rh.test.vol2surf.mgh --trgsubject fsaverage --surf inflated_pre
> --projfrac 0 --interp nearest
>
> but, seems the values in rh.test.vol2surf.mgh is different (little
> higher) from what I got from tksurfer gui by saving overlay surface.
> any thoughts?
>
> Thanks!
>
> On Thu, Aug 5, 2010 at 11:04 AM, Douglas N Greve
> <gr...@nmr.mgh.harvard.edu> wrote:
>
>> mri_vol2surf is the right command. Have you looked at the help for it? You
>> can get it by running
>>
>> mri_vol2surf --help
>>
>> I think tksurfer uses a projfrac of 0 and nearest neighbor interpolation.
>> You can load the result directly into tksurfer to see if it looks the same.
>>
>> doug
>>
>>
>> Xinian Zuo wrote:
>>
>>> Dear surfers,
>>>
>>> Hi, I used freeesurfer to visualize my volume from FEAT outputs on the
>>> surface in the way:
>>>
>>> tksurfer fsaverage rh inflated_pre -overlay data.nii.gz -mni152reg
>>>
>>> , then save surface overlay as a mgh file. My question is, how can I
>>> get the identical mgh data by using a command line without launching
>>> the tksurfer gui? I found there is a command mri_vol2surf, but not
>>> sure about these default settings in tksurfer gui. Really appreciate
>>> it if some know and like to give your suggestions.
>>>
>>>
>>>
>> --
>> Douglas N. Greve, Ph.D.
>> MGH-NMR Center
>> gr...@nmr.mgh.harvard.edu
>> Phone Number: 617-724-2358 Fax: 617-726-7422
>>
>> Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
>> FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html
>>
>>
>>
>
>
>
>
--
Douglas N. Greve, Ph.D.
MGH-NMR Center
gr...@nmr.mgh.harvard.edu
Phone Number: 617-724-2358
Fax: 617-726-7422
Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html
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