Hi Ellen
The folding index is pretty sensitive to kmax, which can be huge for tiny
antennae and such. It may not be the right measure for what you are trying to
capture. You can always compute the curvatures with mris_curvature then
overlay them and see if there are outlier values, or find the max in matlab or
something, but in the end you may want to quantify things differently.
Cheers
Bruce
-----Original Message-----
From: freesurfer-boun...@nmr.mgh.harvard.edu
<freesurfer-boun...@nmr.mgh.harvard.edu> On Behalf Of Ellen Ji
Sent: Monday, April 19, 2021 9:06 AM
To: freesurfer@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] Abormally high foldind index
External Email - Use Caution
Hi Bruce,
I looked at the pial surfaces and WM by running this for the outlier
subjects:
freeview -v subject1/mri/T1.mgz \
subject1/mri/brainmask.mgz \
-f subject1/surf/lh.white:edgecolor=yellow \
subject1/surf/lh.pial:edgecolor=red \ subject1/surf/rh.white:edgecolor=yellow \
subject1/surf/rh.pial:edgecolor=red
Nothing stood out to me. Is there anything else you suggest I investigate? What
could explain a negative folding index?
Best,
Ellen
On 3/31/2021 12:18 AM, Fischl, Bruce wrote:
> Hi Ellen
>
> It is certainly possible. Have you looked at the surfaces for those subjects?
>
> Cheers
> Bruce
>
> -----Original Message-----
> From: freesurfer-boun...@nmr.mgh.harvard.edu
> <freesurfer-boun...@nmr.mgh.harvard.edu> On Behalf Of Ellen Ji
> Sent: Tuesday, March 30, 2021 5:44 PM
> To: freesurfer@nmr.mgh.harvard.edu
> Subject: [Freesurfer] Abormally high foldind index
>
> External Email - Use Caution
>
> Dear Experts,
>
> While the majority of our subjects have a folding index between 5-30, there
> are a couple of *extreme* outliers in the thousands or even negative.
>
> Could this hint that a particular part of recon-all failed and should be
> rerun?
>
> Thank you for your interpretation and advice!
>
> -Ellen
>
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