The -volume-label-import command is what you want (the output is also a
standard nifti volume, but has some extra stuff in the header). Using the
empty string ("") for the label list text file will give you labels with
names like "Label_2", rather than actual structure names, but that is okay
for just -volume-parcel-smoothing (it won't work for -cifti-create-* that
require a label volume). There is probably a label list text file
somewhere, if you want the real structure names that match freesurfer aparc
or aseg values, but I don't know where.
Tim
On Thu, Jul 28, 2016 at 4:11 PM, Jean-François Cabana <[email protected]>
wrote:
> Dear HCP community,
>
> I want to smooth DWI volumes prior to performing a DKI fit. Instead of
> smoothing the whole volume, I would very much prefer to perform the parcel
> smoothing approach provided by wb_command -volume-parcel-smoothing.
> However, I don’t know what is the label volume this command expects. I
> tried using the aparc+aseg.nii.gz file but the command complains that this
> is not a label file :
>
> *wb_command -volume-parcel-smoothing DWI.nii aparc+aseg_2mm.nii 1
> DWI_s1_aparc.nii*
>
> *ERROR: label volume doesn't contain label data*
>
> My question is: how could I convert aparc+aseg.nii to a label volume file
> that –volume-parcel-smoothing would take?
>
> Cheers,
> JF
>
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