If you want to transfer a segmentation, then it is better to use
mri_label2vol with the --seg option. Run it with --help to get examples.
Probably even better is to transfer your functional to anatomical space
(mri_vol2vol) so that it is in registration with the anatomical;
transferring it to anat space handles partial voluming better.

On 4/16/19 8:21 PM, Sam W. wrote:
>
>         External Email - Use Caution
>
> Hi,
>
> I just finished reconall and now I'd like to convert the aseg.mgz to
> native functional space.
> My first thought was to simply convert the aseg.mgz to native
> functional space with mri_vol2vol:
> mri_vol2vol --mov sub001/mri/aseg.mgz --targ example_func.nii.gz --o
> aseg-in-rawavg.nii --regheader
> Is this a valid procedure to convert the aseg to functional space?
> I think the recommended way is to register the example_func to
> anatomical first:
> bbregister --mov example_func.nii.gz --s sub001 --reg reg.dat
> and then use mri_vol2vol with the --inv flag
> mri_vol2vol --mov sub001/mri/aseg.mgz --targ example_func.nii.gz --o
> aseg-in-rawavg.nii --regheader --inv
> But I'm not sure... Could someone confirm which of the above  (or
> maybe none of them) is correct?
>
> Best regards,
> Sam
>
>
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