Many thanks, Michael! L
From: freesurfer-boun...@nmr.mgh.harvard.edu [mailto:freesurfer-boun...@nmr.mgh.harvard.edu] On Behalf Of Harms, Michael Sent: 29 September 2015 15:54 To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] total grey matter volume They are conveniently already provided for you in the {lh,rh}.aparc.stats files. And even more conveniently, if you run 'aparcstats2table', with --measure=thickness, the last column is the mean cortical thickness (for that hemisphere), and if you run with --measure=area, the last column is the total white surface area (for that hemisphere). cheers, -MH -- Michael Harms, Ph.D. ----------------------------------------------------------- Conte Center for the Neuroscience of Mental Disorders Washington University School of Medicine Department of Psychiatry, Box 8134 660 South Euclid Ave. Tel: 314-747-6173 St. Louis, MO 63110 Email: mha...@wustl.edu<mailto:mha...@wustl.edu> From: <Lim>, Lena <lena....@kcl.ac.uk<mailto:lena....@kcl.ac.uk>> Reply-To: "freesurfer@nmr.mgh.harvard.edu<mailto:freesurfer@nmr.mgh.harvard.edu>" <freesurfer@nmr.mgh.harvard.edu<mailto:freesurfer@nmr.mgh.harvard.edu>> Date: Tuesday, September 29, 2015 6:52 AM To: "freesurfer@nmr.mgh.harvard.edu<mailto:freesurfer@nmr.mgh.harvard.edu>" <freesurfer@nmr.mgh.harvard.edu<mailto:freesurfer@nmr.mgh.harvard.edu>> Subject: Re: [Freesurfer] total grey matter volume Thanks, Michael. How do I get the total thickness and total surface area values form Freesurfer/Qdec please? Thanks again, L From: freesurfer-boun...@nmr.mgh.harvard.edu<mailto:freesurfer-boun...@nmr.mgh.harvard.edu> [mailto:freesurfer-boun...@nmr.mgh.harvard.edu] On Behalf Of Harms, Michael Sent: 29 September 2015 04:30 To: freesurfer@nmr.mgh.harvard.edu<mailto:freesurfer@nmr.mgh.harvard.edu> Subject: Re: [Freesurfer] total grey matter volume I'm a fan of using global mean thickness as a covariate for thickness analyses, and total surface area as a covariate for surface area analyses. That way you directly covary for possible global effects using the same type of measure that you are analyzing. cheers, -MH -- Michael Harms, Ph.D. ----------------------------------------------------------- Conte Center for the Neuroscience of Mental Disorders Washington University School of Medicine Department of Psychiatry, Box 8134 660 South Euclid Ave. Tel: 314-747-6173 St. Louis, MO 63110 Email: mha...@wustl.edu<mailto:mha...@wustl.edu> From: Doug Greve <gr...@nmr.mgh.harvard.edu<mailto:gr...@nmr.mgh.harvard.edu>> Reply-To: "freesurfer@nmr.mgh.harvard.edu<mailto:freesurfer@nmr.mgh.harvard.edu>" <freesurfer@nmr.mgh.harvard.edu<mailto:freesurfer@nmr.mgh.harvard.edu>> Date: Monday, September 28, 2015 11:18 AM To: "freesurfer@nmr.mgh.harvard.edu<mailto:freesurfer@nmr.mgh.harvard.edu>" <freesurfer@nmr.mgh.harvard.edu<mailto:freesurfer@nmr.mgh.harvard.edu>> Subject: Re: [Freesurfer] total grey matter volume Not for thickness. For surface area it is a good idea to do some kind of normalization. Typically people use the estimated intracranial volume (ICV). You can also use total brain volume or total grey volume. You just need to be aware that each one of these tests something different. On 9/28/15 12:15 PM, Lim, Lena wrote: Dear Experts, Do we need to include total grey matter volume as a covariate in the freesurfer cortical thickness and surface area analyses? I have come across papers that do and don't; so I am not sure if I have to do that. Please kindly advice. Many thanks, Lena _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu<mailto:Freesurfer@nmr.mgh.harvard.edu>https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer ________________________________ The materials in this message are private and may contain Protected Healthcare Information or other information of a sensitive nature. If you are not the intended recipient, be advised that any unauthorized use, disclosure, copying or the taking of any action in reliance on the contents of this information is strictly prohibited. If you have received this email in error, please immediately notify the sender via telephone or return mail. ________________________________ The materials in this message are private and may contain Protected Healthcare Information or other information of a sensitive nature. If you are not the intended recipient, be advised that any unauthorized use, disclosure, copying or the taking of any action in reliance on the contents of this information is strictly prohibited. If you have received this email in error, please immediately notify the sender via telephone or return mail.
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