They’re different modules with different algorithms, which give different yet very highly correlated results. So, whatever you use the volumes for further down the stream, the results should be very similar with either version. 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 "Al Qadi, Ameen" ameen.alqadi@icahn.mssm.edu Reply-To: Freesurfer support list freesurfer@nmr.mgh.harvard.edu Date: Monday, September 7, 2020 at 14:37 To: "Fischl, Bruce" BFISCHL@mgh.harvard.edu, Freesurfer support list freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] Fwd: Whole Thalamus Volume

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---------- Forwarded message --------- From: Al Qadi, Ameen <ameen.alqadi@icahn.mssm.edumailto:ameen.alqadi@icahn.mssm.edu> Date: Fri, Sep 4, 2020 at 6:09 PM Subject: Whole Thalamus Volume To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edumailto:freesurfer@nmr.mgh.harvard.edu>

Dear Freesurfer Developers,

I noticed a significant disparity in the left and right whole thalamus volumes between aseg.stats generated from recon-all and ThalamicNuclei.v12.T1.volumes.txt generated from the thalamic nuclei segmentation. Which set of volumes is the correct one to use?

Best, Ameen

-- Ameen Al Qadi MSBS Candidate Icahn School Of Medicine at Mount Sinai '20 +1-646-500-1521 ameen.alqadi@icahn.mssm.edumailto:ameen.alqadi@icahn.mssm.edu

-- Ameen Al Qadi MSBS Candidate Icahn School Of Medicine at Mount Sinai '20 +1-646-500-1521 ameen.alqadi@icahn.mssm.edumailto:ameen.alqadi@icahn.mssm.edu