Re: [Freesurfer] Longitudinal structural analysis in FreeSurfer ???

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Hi Hamied

You can look at

https://secure-web.cisco.com/1bnaZSruaFQGVYR6VQLh6aOpRfUAXWWdFgqdgPextIAFEWs... https://secure-web.cisco.com/15FkmDqn8PH2TrtPz0MNOJ3GsSLi9E-nZojMgQPivW43V7f...

and also recon-all -help and search for longitudinal.

Cheers Bruce

From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu On Behalf Of Hamied Haroon Sent: Tuesday, June 27, 2023 11:02 AM To: Freesurfer support list freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] Longitudinal structural analysis in FreeSurfer ???

External Email - Use Caution Thank you so much!

Where do I find out how to run the longitudinal stream, please?

Best wishes,

Hamied

From: freesurfer-bounces@nmr.mgh.harvard.edumailto:freesurfer-bounces@nmr.mgh.harvard.edu <freesurfer-bounces@nmr.mgh.harvard.edumailto:freesurfer-bounces@nmr.mgh.harvard.edu> On Behalf Of Fischl, Bruce R.,PHD Sent: Tuesday, June 27, 2023 4:00 PM To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edumailto:freesurfer@nmr.mgh.harvard.edu> Subject: Re: [Freesurfer] Longitudinal structural analysis in FreeSurfer ???

External Email - Use Caution you can also use our longitudinal stream that improves sensitivity and reliability. Run it after you have run the cross-sectional - it will improve your results considerably

cheers Bruce ________________________________ From: freesurfer-bounces@nmr.mgh.harvard.edumailto:freesurfer-bounces@nmr.mgh.harvard.edu <freesurfer-bounces@nmr.mgh.harvard.edumailto:freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of Huang, Yujing <YHUANG43@mgh.harvard.edumailto:YHUANG43@mgh.harvard.edu> Sent: Tuesday, June 27, 2023 10:11 AM To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edumailto:freesurfer@nmr.mgh.harvard.edu> Subject: Re: [Freesurfer] Longitudinal structural analysis in FreeSurfer ???

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Hi Hamied,

I believe you can use mri_segstats (MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be https://secure-web.cisco.com/1KKsj4S_pzLppp0LWwzP9RNlWGOfH0UhR3SKmXq0KdAKjz0... [secure-web.cisco.com]https://secure-web.cisco.com/1suY8rCw0HsLnOoUmHI6Sq3MowuajkWPxT4RlPjPnID7I1q0IfB3Tho0cLVUTS7LWQjM8MU5EBwIG2IVlvnLms_dGgXezhUHxGHbriizcwob7DyDteLO_wb21i9BGS6H8bcZ9wAczE9Wgtxx4ryJS7qK8AzXnEQvJIaUz_QynwGlMsbCMAaJF4_bXKp2BxiUyIYAy2kM1fMPOqY8mVZdlInPsah0dEeqyeonTkkyve9VG78ZoM49sZVIDrp9pAWO4DeavEk1i-BGfuB15cLw13O-3BHBNF8oLH5qSj3evoRJI5bbGFGfzltLpPHyzISfz/https%3A%2F%2Furldefense.com%2Fv3%2F__https%3A%2Fsecure-web.cisco.com%2F1t9vh-Oj21vw4Rayc9EasX_SVka7JZBcaU4jDLdDJ7U4SGdAuLh5BS8dLNGVpAf430Gw4__m6BXEnp-Jui9IuuO9MN4XrwpoH_KqirdZeOt1bGzW0cue0R631HMoXuhIMj0_qz2YcWlfGc5V-FzJe22GTCvPQZ6unps7oDItH9JMmeECj7tbwlF0zAw6VMjNuv08F8t38j02uVdA3wQP4hgweClzzaYHuow_GfULkhXhGPO8DzsmrU2MkfZ8qYrsQ%2Fhttps%2A3A%2A2F%2A2Fsurfer.nmr.mgh.harvard.edu%2A2Ffswiki%2A2Fmri_segstats__%3BJSUlJSU%21%21PDiH4ENfjr2_Jw%21CJSENOIlg85DMUpaPAeorq55UZT7VMEmCvA2s0aNUq9w9M9eBiNcF-SClRd_kT4-xhws_cdYA5nxIMcobV_8cY7HUPYEAU3DxQ%24) to generate the stats.

Best,

Yujing

From: freesurfer-bounces@nmr.mgh.harvard.edumailto:freesurfer-bounces@nmr.mgh.harvard.edu <freesurfer-bounces@nmr.mgh.harvard.edumailto:freesurfer-bounces@nmr.mgh.harvard.edu> On Behalf Of Hamied Haroon Sent: Tuesday, June 27, 2023 7:12 AM To: freesurfer@nmr.mgh.harvard.edumailto:freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] Longitudinal structural analysis in FreeSurfer ???

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Hello,

I've run recon-all on patient T1s acquired at different timepoints after a neurological insult, in FreeSurfer v7.3.2

I want to analyse any change in the volume, surface area and average thickness of specific regions across time in each patient. Can I do this in FreeSurfer?

Many thanks.

Best wishes,

Hamied

Dr Hamied A Haroon, MSc, PhD, MInstP

Research Associate in Biomedical Magnetic Resonance Imaging

The University of Manchester