Re: [Freesurfer] registering to fsaverage

Hi Trisanna

you would only use those options of if you were transforming a surface Bruce

On Wed, 15 Jun 2016, Trisanna Sprung-Much wrote:

thanks Dr. Fischl

I assume that for surface overlays one cannot specify --sval-xyz and --tval-xyz or the command will treat the input as a surface itself?

best

Trisanna

-- Ph.D. CandidateMcGill University Integrated Program in Neuroscience Psychology

On Wed, Jun 15, 2016 at 11:11 AM, Bruce Fischl fischl@nmr.mgh.harvard.edu wrote: Hi Trisanna

  you don't need to inflate the overlays. They can just use the existing surface-based (sphere.reg) registration.

  cheers
  Bruce
  On Wed, 15 Jun 2016, Trisanna Sprung-Much wrote:

        Hi there
        So I have sulcal labels from another software (.mnc format) from which I am trying to generate some
        probability maps. I was able
        to convert the .mnc to .mgz surface overlay using mri_vol2surf for my MRIs after running all MRIs in
        recon-all. So, now I have
        all my painted voxels as surface overlays, as I was instructed to do a few months ago.

        I was told that the next step would be to use mri_surf2surf to resample the overlays to fsaverage. 

        I am a bit confused as I would think that the next step would be to take the surface overlays and
        inflate them before I register
        them to fsaverage. I see that when recon-all runs, it computes the registration of the MRI surface to
        fsaverage and saves it as
        sphere.reg. Is there a way I can inflate my surface overlays in a similar manner and then apply this
        same registration to my
        surface overlays? Or am I missing something?

        thanks very much!

        Trisanna


        --
        Ph.D. CandidateMcGill University
        Integrated Program in Neuroscience
        Psychology




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