External Email - Use Caution
Dear Angelika, Can you please send us a screenshot of the inaccurate T1 segmentation? Cheers, /Eugenio
-- Juan Eugenio Iglesias Senior research fellow CMIC (UCL), MGH (HMS) and CSAIL (MIT) http://www.jeiglesias.com
From: freesurfer-bounces@nmr.mgh.harvard.edu on behalf of "Mennecke, Angelika" Angelika.Mennecke@uk-erlangen.de Reply-To: Freesurfer support list freesurfer@nmr.mgh.harvard.edu Date: Monday, 17 June 2019 at 06:36 To: "freesurfer@nmr.mgh.harvard.edu" freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] hippocampal subfields error
External Email - Use Caution Hi all,
I’m doing hippocampal subfields analysis with freesurfer 6.0 with T1 and high resolution T2 data from a 7T MRT. With at least one of my datasets Matlab throws an error during the hippocampal-subfields-T2 –pipeline:
Making Unknown map to reduced label 14 Computing hyperparameters for estimation of Gaussians of T2 data Error using | Inputs must have the same size.
Error in segmentSubjectT2_autoEstimateAlveusML (line 1064)
With other patients, the pipeline on the T2 images is correctly working without errors. I’m wondering what is causing this error and whether there is something I can do to avoid it?
As far as I can see, the only difference between the “error” dataset and the others is that hippocampal subfields-T1 is also not calculated correctly. It finishes without errors, but the final result does not cover the hippocampus correctly (probably due to a T1-hypointense cyst in the hippocampus of that patient).
Best regards,
Angelika