Re: [Freesurfer] to paint functional on surface, use mri_vol2surf or tksurfer?

yes, that works. You'll probably want to fill the ribbon using the --proj option (something like --proj frac 0 1 .1)

doug

Yang Liu wrote:

Hi Doug,

Thanks for the quick reply. What the standard procedure to get a volume ROI from a surfaced defined ROI?

My solution is to create a label by filling a region in a closed path. Then is the next step to use mri_label2vol?

Yang

On Mon, Apr 18, 2011 at 1:15 PM, Douglas N Greve <greve@nmr.mgh.harvard.edu mailto:greve@nmr.mgh.harvard.edu> wrote:

Hi Yang, using mri_vol2surf is more accurate than tksurfer by
itself. You can also control the depth of projection with
mri_vol2surf (eg, sample half way between the white and pial
surfaces).

doug

Yang Liu wrote:

    Hi,

    I am trying to paint the functional significance map onto the
    surface generated from the antomical (monkey brain).  What I
    am doing now is using the following command:

    " tksurfer ${tmp_subj} ${hemi} ${cut_surface}  -overlay
    /space/data/stan/cooked/2010/100131CastorTEST2/MION/fmc_reg/H-vs-V/sig.256.reg.nii
    -overlay-reg ${reg_dir}/register.dat "

    the "sig.256.reg.nii" is the significance map and
    "register.dat" is the transformation matrix.

    It looks like that the commands are doing fine, I see the
    signicance map on inflated surfaces.  However, I also see
    other tutorial that used mri_vol2surf to display the
    significance map.
    I wonder whether or not our method is not as good as mri_vol2surf.

    I am asking this question also because we are creating ROIs
    from the surfaces. Now our ROIs (labels)  are only
    corresponding to a very tight layer of voxels surrounding the
    white matter. Shall I use mri_label2vol to include all the
    graymatter voxels surrounding the label?

    Any suggestions would be very helpful.


    Yang
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MGH-NMR Center
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