Hi Luis, yes there is a more efficient way. Specify the native res functional as the --mov argument and specify the registration that you used to create the hires_functional as the --reg argument (instead of --regheader). While you can use a .w file, I would recommend instead a .mgh file (we're trying to phase out the .w); If you use mgh format, not need to spec a --out_type. That command will convert to the native subject surface. If you want to go to fsaverage you can either run mri_surf2surf after that or spec --trgsubject fsaverage doug
On 06/25/2012 03:43 PM, Luis R. Piloto wrote: > Hello Fellow Freesurfers, > > I need some verification that my method for mapping functional data onto a > spherical surface is sound. > > What I'm currently doing is running recon-all on my high-resolution, > structural volume (.nii.gz format). After that, I take a single timepoint of > my functional data (that has been both registered and upsampled to the > high-res structural space), and run it through mri_vol2surf with the > following command: > mri_vol2surf --mov highres_functional_slice00.niii.gz --hemi lh --regheader > my_subject_name --out_type paint -o ./my_output_surface.w > > What I'm most worried about is whether this method of registration (i.e. > specifying --regheader) is sufficient to go from the upsampled/registered > functional to the surface? Also is there some more efficient way of doing > this? I feel like there might be a smarter way to go from the functional to > the structural without having to explicitly register and upsample before > using mri_vol2surf. > > After this step, I simply pass my_output_surface.w to a program that reads > the corresponding vertex and functional activity at that location and look up > the vertex coordinates in my lh.sphere file. Any feedback would be really > appreciated as I'm still really new to this software suite and was given a > highly specific task to take care of. Thanks in advance! > > Regards, > Luis Piloto > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > -- 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 _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
