Hi Patricia,

Do you think you could send us an example? I’ve never seen the registration fail with good prealignment on an of my datasets, so this would be very, very helpful to improve the software.

Cheers,

/Eugenio

-- 

Juan Eugenio Iglesias

ERC Senior Research Fellow

Translational Imaging Group

University College London

http://www.jeiglesias.com

http://cmictig.cs.ucl.ac.uk/

From: <freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of Patricia Linortner <plinortn@stanford.edu>
Reply-To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu>
Date: Tuesday, 31 October 2017 at 22:54
To: "freesurfer@nmr.mgh.harvard.edu" <freesurfer@nmr.mgh.harvard.edu>
Subject: [Freesurfer] Freesurfer 6.0 - Hippocampal subfields segmentation (Mode B) - Registration error

Hi all,

I am using Freesurfer 6.0 for hippocampal subfield segmentation (Mode B:  -hippocampal-subfields-T1T2).
For each subject, I have a 3T-T1 MRI (whole brain) and a 7T-T2 MRI (partial brain).

Segmentation works in most subjects, but in some subjects the co-registration of the 7T-T2 MRI scan fails.
[Despite good scan quality and pre-alignment using Freeview]

I was wondering if you had any input/suggestion(s) for fixing this error (e.g. using mri_register)?

Thanks,
Patricia