Hi Anastasia,
Thank you for the quick response. I did not preprocess my diffusion data using dt_recon, so I suppose the way to do it would be to first run: bbregister --s $subject --mov bo_brain.nii.gz --reg register2b0.dat --dti --init-fsl and then: mri_vol2vol --mov lowb.nii --targ $subject/mri/aparc+aseg.mgz --inv --interp nearest --o $subjectj/mri/aparc+aseg2diff.mgz --reg register2b0.dat --no-save-reg
Does this look right?
Thank you very much, M.
On Fri, Feb 16, 2018 at 4:08 PM, Yendiki, Anastasia < AYENDIKI@mgh.harvard.edu> wrote:
Hi M - You generally want to register the lower-res to the higher-res image. In this case, that’s diffusion to T1. Check the diffusion processing tutorial on the freesurfer wiki for how you can apply the inverse transform to the aparc+aseg to get it into diffusion space.
Best, a.y
From: freesurfer-bounces@nmr.mgh.harvard.edu on behalf of "Michiko H." < michiko.rc@gmail.com> Reply-To: Freesurfer support list freesurfer@nmr.mgh.harvard.edu Date: Friday, February 16, 2018 at 3:57 PM To: Freesurfer support list freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] bbregister aparc+aseg to diffusion space
Hi,
I understand that bbregister can be used to register diffusion to T1 space but I'm a lot less certain how this can be done in the reverse way, i.e. registering the entire aparc+aseg file to diffusion B0? Do I also do: bbregister --s $subject --mov bo_brain.nii.gz --reg registration2b0.dat --dti --init-fsl
To follow up, I'm also unclear whether this method is inferior to registering diffusion to T1 - if so, why may this be so?
Thanks a lot in advance, M.
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