Dear Freesurfer experts, I'd like to transform a surface S to a native volume V which is not the original T1.
I first computed the transform V_to_orig.mat using flirt. Loading the resulting volume and the lh.pial showed satisfactory results in freeview. Now I'd like to obtain the surface in the native volume. For this I tried applying the inverse of the flirt xform using mri_surf2surf: tkregister2 --fsl orig_to_V.mat --mov orig.nii --targ V.nii.gz --reg orig_to_V.dat --noedit mri_surf2surf --sval-xyz pial --reg orig_to_V.dat --tval pial.native --tval-xyz --hemi lh --s subject However the resulting surface is offset and orthogonal to the native volume. Am I missing anything in the tkregister2 command? Thanks for your help, Arnaud _______________________________________________ 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.
