how was pial-outer-smoothed create?
On 7/1/2019 2:33 PM, Nillo, Ryan Michael R wrote: Hi Doug,
lh.test.nii was created with:
mri_vol2surf --mov ./misc/lh.probability.nii --trgsubject fsaverage_1 --regheader fsaverage_1 --hemi lh --fwhm 30 --surf pial-outer-smoothed --o ./lh.test.nii
Where lh.probability.nii is a probability mask created from about 63 subjects.
Thanks in advance for the help,
Ryan Michael Nillo Staff Research Associate I University of California San Francisco Department of Radiology and Biomedical Imaging
On Jul 1, 2019, at 11:13 AM, Greve, Douglas N.,Ph.D. <DGREVE@mgh.harvard.edumailto:DGREVE@mgh.harvard.edu> wrote:
Who did you create lh.test.nii?
On 7/1/2019 1:47 PM, Nillo, Ryan Michael R wrote: Hi Bruce,
We wanted to map values from a previous analysis to a representation of the brain with the sulci filled — something that resembles the output lh.pial-outer-smoothed from the recon-all -localGI. I tried using mri_surf2surf, but I get the error:
ERROR: dimension inconsistency in source data Number of surface vertices = 163842 Number of value vertices = 73466
My command: mri_surf2surf --srcsubject fsaverage_1 --trgsubject fsaverage --sval ./lh.test.nii --tval lh.pial-outer-smoothed2white.nii --hemi lh
fsaverage_1 is a copy of fsaverage that I ran recon-all -localGI on to get the pial-outer-smoothed surface. Ryan Michael Nillo Staff Research Associate I University of California San Francisco Department of Radiology and Biomedical Imaging
On Jul 1, 2019, at 10:27 AM, Bruce Fischl <fischl@nmr.mgh.harvard.edumailto:fischl@nmr.mgh.harvard.edu> wrote:
Hi Ryan
I'm not sure why you would have a surface with 73K vertices on fsaverage. Why not use one of the ico representations (40K or 160K vertices)? In any case, mri_surf2surf should do the trick, although you will probably need to create a new subject with a set of 73K vertex surfaces
cheers Bruce On Mon, 1 Jul 2019, Nillo, Ryan Michael R wrote:
Hello Freesurfer users/developers, I have surface with ~73,400 vertices generated from the Freesurfer version 6 fsaverage brain, left hemisphere. I have a surface map that was created by mapping a volume to the fsaverage white surface. Is there a way to map the surface map to the new surface with less vertices? Is there a way to map values from the 73,000 vertices-map to the standard fsaverage pal surface? Thanks in advance, Ryan Michael Nillo Staff Research Associate I University of California San Francisco Department of Radiology and Biomedical Imaging _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edumailto:Freesurfer@nmr.mgh.harvard.edu https://urldefense.proofpoint.com/v2/url?u=https-3A__mail.nmr.mgh.harvard.ed...
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