fwhm) as well as
measure the smoothness. The --smooth-only says to not do the FWHM
estimate (just smooth it).
>
> Thanks in advance!
> J
>
>
>
>
>
>
>> Original Message
>> Subject: Re: [Freesurfer] cortical thickness smoothing
moothness. The --smooth-only says to not do the FWHM
estimate (just smooth it).
>
> Thanks in advance!
> J
>
>
>
>
>
>
>> Original Message
>> Subject: Re: [Freesurfer] cortical thickness smoothing
>> Local Time: December
developed to measure the FWHM
but I extended it to be able to apply smoothing (--fwhm) as well as
measure the smoothness. The --smooth-only says to not do the FWHM
estimate (just smooth it).
>
> Thanks in advance!
> J
>
>
>
>
>
>
>> Original Message ---
To reinforce what bruce is saying, mri_surf2surf does surface-based
smoothing (ie, along the cortical surface), whereas fslmaths does
volume-based smoothing which does not take into account the anatomy
On 12/12/2017 10:38 AM, Bruce Fischl wrote:
> Hi John
>
> I don't think fslmaths takes a surf
Thanks in advance!
J
> Original Message ----
> Subject: Re: [Freesurfer] cortical thickness smoothing
> Local Time: December 12, 2017 10:38 AM
> UTC Time: December 12, 2017 3:38 PM
> From: fis...@nmr.mgh.harvard.edu
> To: John Anderson , Freesurfer support list
>
>
Hi John
I don't think fslmaths takes a surface topology so they won't be the same
(mri_surf2surf smooths within the surface and fslmaths smooths in the
volume I believe)
cheers
Bruce
On Tue, 12 Dec 2017, John Anderson wrote:
Dear Freesurfer experts,
I ran recon-all with the flag -qcache t
Dear Freesurfer experts,
I ran recon-all with the flag -qcache to generate smoothed cortical thickness
maps.
In order to check how the flag "-qcache" is smoothing the cortical thickness
data. I looked into the file $subj_dir/scripts/recon-all.log" which showed that
the following command was appl
