I am a bit puzzled as to why you would want to smooth a diffusion volume prior to fitting tensors or some other diffusion model. Diffusion imaging is a very resolution starved problem already and smoothing will just make this worse.
Peace, Matt. From: <[email protected]<mailto:[email protected]>> on behalf of Timothy Coalson <[email protected]<mailto:[email protected]>> Date: Thursday, July 28, 2016 at 4:22 PM To: Jean-François Cabana <[email protected]<mailto:[email protected]>> Cc: "[email protected]<mailto:[email protected]>" <[email protected]<mailto:[email protected]>> Subject: Re: [HCP-Users] Using -volume-parcel-smoothing 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]<mailto:[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 _______________________________________________ HCP-Users mailing list [email protected]<mailto:[email protected]> http://lists.humanconnectome.org/mailman/listinfo/hcp-users _______________________________________________ HCP-Users mailing list [email protected]<mailto:[email protected]> http://lists.humanconnectome.org/mailman/listinfo/hcp-users ________________________________ The materials in this message are private and may contain Protected Healthcare Information or other information of a sensitive nature. If you are not the intended recipient, be advised that any unauthorized use, disclosure, copying or the taking of any action in reliance on the contents of this information is strictly prohibited. If you have received this email in error, please immediately notify the sender via telephone or return mail. _______________________________________________ HCP-Users mailing list [email protected] http://lists.humanconnectome.org/mailman/listinfo/hcp-users
