Thank you, Victor. 1.5x1x1mm is not ideal, but you should be able to run the modules. Just make sure to QC the output. 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 "Zeng, Victor (BIDMC - Keshavan - Psychiatry)" vzeng@bidmc.harvard.edu Reply-To: Freesurfer support list freesurfer@nmr.mgh.harvard.edu Date: Thursday, July 2, 2020 at 16:02 To: Freesurfer support list freesurfer@nmr.mgh.harvard.edu Cc: "joliehoang22@gmail.com" joliehoang22@gmail.com Subject: Re: [Freesurfer] Subfield parcellation in 1.5 T and 2.6 mm Thickness {Disarmed}

The original MRI dims were: 256 256 124, and pixel dim: 0.9375 0.9375 1.5

These MRI scans are really old and predate DCMs so I'm not exactly sure how else to extract the data. But there​'s no complementary MR scans included in the FS processing either.

​I have mixed sources saying different things for the thickness (I'm assuming the thickness is 1.5). I am told that the fov is 240, but I'm not sure how I can confirm.

Victor Zeng Beth Israel Deaconess Medical Center Keshavan Lab -- ________________________________ From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu on behalf of Iglesias Gonzalez, Juan E. JIGLESIASGONZALEZ@mgh.harvard.edu Sent: Thursday, July 2, 2020 2:55 PM To: Freesurfer support list Cc: joliehoang22@gmail.com Subject: [External] Re: [Freesurfer] Subfield parcellation in 1.5 T and 2.6 mm Thickness

Dear Victor, Sorry for the slow response. 1.5 T is not a problem. Do you have a companion 1mm T1? If no: then the main problem is the main recon stream. If yes: what is the in-plane resolution and orientation? If it’s a high-res coronal, it may help with the subfields. For the thalamus, I’d just use the 1 mm T1. Cheers, /Eugenio

Juan Eugenio Iglesias Senior research fellow CMIC (UCL), MGH (HMS) and CSAIL (MIT) MailScanner has detected a possible fraud attempt from "urldefense.proofpoint.com" claiming to be http://www.jeiglesias.comhttps://urldefense.proofpoint.com/v2/url?u=http-3A__www.jeiglesias.com&d=DwMGaQ&c=WknmpdNpvrlj2B5K1aWVqL1SOiF30547pqSuOmtwXTQ&r=ziAm16qmlGqGtX5PhV9Harh0DYcHWCNZ9xWh5fPQIi0&m=voAnzwScK604ztKqVYBBryJi5VYq9EKKaa37_nylwsg&s=wLZAs0haXb4e1DLcgEQSjWYwYLKZGsYHevdpYfExy94&e=

From: freesurfer-bounces@nmr.mgh.harvard.edu on behalf of "Zeng, Victor (BIDMC - Keshavan - Psychiatry)" vzeng@bidmc.harvard.edu Reply-To: Freesurfer support list freesurfer@nmr.mgh.harvard.edu Date: Thursday, June 25, 2020 at 17:56 To: Freesurfer support list freesurfer@nmr.mgh.harvard.edu Cc: "joliehoang22@gmail.com" joliehoang22@gmail.com Subject: [Freesurfer] Subfield parcellation in 1.5 T and 2.6 mm Thickness

​

Hi FS developers,

We were wondering whether a MRI scan that has 2.6 mm thickness + is 1.5 T would be sufficient for a subfield analysis (amygdala, hippocampus, thalamus).

Thanks, Victor Zeng Beth Israel Deaconess Medical Center Keshavan Lab --

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