[Freesurfer] Questions about the transformation of DKatlas from surface to volume

Hi, I have three questions about the transformation. (1) Is Desikan-Killiany Atlas in Talairach space? The volume was transposed onto the "inflated" cortical surface based on the image in freesurfer/average/mni305.cor.mgz ? (2) DK_atlas seems to be obtained from the inflation of interface of

Re: [Freesurfer] Extracting labels using mri_watershed

Hi Emma, I've tried this before but surprisingly not such labels in the output volume. On Wed, Oct 11, 2017 at 9:03 PM Boyd, Emma wrote: > Hi Fereshte, > > mri_watershed -LABEL inputvolume.mgz outputvolume.mgz > > The output volume will contain 6 labels: > 0 = exterior >

Re: [Freesurfer] Questions about the transformation of DKatlas from surface to volume

Hi Zhiqiang (1) No, the manual parcellations were done in individual subject space, then compiled into an atlas in fsaverage/spherical warp coords. (2) We inflate the white surface, but I don't think inflating the pial would be much different. YOu can do it yourself if you want with

[Freesurfer] register.dof6.dat file missing with register-sess

Hello Freesurfer experts, After I run preproc-sess with this command ( preproc-sess -surface self lhrh -fwhm 5 -fsd Retinotopy -per-run -s Sess01 -s Sess02 ), I get an error saying that the register.dof6.dat file is missing and I should run register-sess to create it. When I run this with the

Re: [Freesurfer] Questions about the transformation of DKatlas from surface to volume

Thanks for your quick reply. For the third question, if I use talairach.xfm to transform the atlas in volume, it will go to the MNI305 space. However, how to transform the atlas from the Talariach to MNI152 space? And I will the atlas in volume format in other software related to the functional