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Eugenio,

 

Not sure if there is any interest in this, but here is our code for converting the data into T1 NIFTI space.

 

Thanks for the help,

 

Mark

 

____________________
Mark Wagshul, PhD
Associate Professor
Gruss Magnetic Resonance Research Center
Albert Einstein College of Medicine
Bronx, NY 10461

Ph: 718-430-4011

FAX: 718-430-3399

Email: mark.wagshul@einstein.yu.edu

 

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From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Iglesias Gonzalez, Eugenio
Sent: Friday, May 4, 2018 2:44 AM
To: Freesurfer support list; Freesurfer support list
Subject: Re: [Freesurfer] Extracting DTI/NODDI data from hippocampal subfields

 

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Hi again,

You pick the most probable label at each voxel. In a binary segmentation problem, that amounts to thresholding at 50%. By with more labels, it does not, eg if p(a)=p.4, p(b)=0.3 and p(c)=0.3, you pick a even though p(a)<0.5.

Cheers

E

Sent from my phone, please excuse brevity and typos

 

From: freesurfer-bounces@nmr.mgh.harvard.edu <freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of Mark Wagshul <Mark.Wagshul@einstein.yu.edu>
Sent: Friday, May 4, 2018 12:24:36 AM
To: Freesurfer support list
Subject: Re: [Freesurfer] Extracting DTI/NODDI data from hippocampal subfields

 

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Eugenio,

Yes, we are on the same page, thank you so much for the advice.

One followup question - is the threshold on the binary masks 50%?

Mark
_______________________
Mark Wagshul, PhD
Albert Einstein College of Medicine
Bronx, NY

Sent from my iPhone

> On May 3, 2018, at 3:47 AM, Iglesias Gonzalez, Eugenio <e.iglesias@ucl.ac.uk> wrote:
>
> Eugenio


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