Can you send the command line and terminal output?

On 11/10/17 1:34 PM, Mehta, Chintan wrote:

Dear FreeSurfer users,

Sorry for adding the questions, I found most of my answers at

https://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/DiffusionV6.0#dMRIDataA...

I used FreeView and found that registrations of the lowb.nii, orig.mgz, lh.white, and rh.white aligned very nicely. Alignments of lowb.nii with wmparc.mgz and aparc+aseg.mgz are also very nice.

However, I'm finding that resampling wmparc.mgz to diffusion space via mri_vol2vol (inverse of dti/register.dat with nearest neighbor interpolation) yields poor alignments with the white surfaces and lowb.nii. Is this inevitable if there is a difference in resolutions between DWI and T1-weighted MRI?

Thank you.

Best, Chintan

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