Hi,

 

I am having an issue converting the aparc+aseg segmentation into the native space. I have tried using both of the following commands:

 

mri_label2vol --seg aparc+aseg.mgz --temp rawavg.mgz --o aparc+aseg_native.mgz --regheader

mri_vol2vol --mov aparc+aseg.mgz --targ rawavg.mgz --regheader --nearest --o aparc+aseg_native.mgz

 

In both cases, the output segmentation in native space is slightly offset along the x axis (given x,y,z coordinates). In fact, mri_label2vol is offset in the opposite direction as mri_vol2vol. All outputs have the same origin as the original native space, so I am wondering if it’s a problem with the interpolation. Do you have any advice for how to fix this issue?

 

Thank you!

 

Kathleen Larson (she/her)

Medical Image Computing Lab (MedICL)

Biomedical Engineering | Ph.D. Candidate

Vanderbilt University