External Email - Use Caution You can always give it a try and put slice thickness as a covariate of no interest.
Matt. From: <freesurfer-boun...@nmr.mgh.harvard.edu> on behalf of Georgia Kapizioni <geo.kapizi...@gmail.com> Reply-To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu> Date: Friday, January 8, 2021 at 10:22 AM To: "freesurfer@nmr.mgh.harvard.edu" <freesurfer@nmr.mgh.harvard.edu> Subject: Re: [Freesurfer] Correcting pial surface with Flair sequence External Email - Use Caution Let me rephrase: I am running an analysis with two groups, a patient group (n=23) and a healthy control group (n=24). I have accomplished 3DT1 recons for all participants. Now I want to correct pial surface using 3D Flair images. However, I have different slice thickness among my participants’ flair images. Specifically for the patients’ group: 14 participants have slice thickness 1 mm but 9 have slice thickness 1.48mm (number of slices 209 for all participants) and in the control group I have for only 6 participants slice thickness 1 mm and for the rest 18 participants slice thickness 1.48 mm (again number of slices 209 for all participants). Could someone please advice me whether I can use these Flair images to correct pial surface despite this slice thickness difference or is this difference going to be tricky for the results? Thank you in advance, Georgia On 7 Jan 2021, at 7:05 PM, Georgia Kapizioni <geo.kapizi...@gmail.com<mailto:geo.kapizi...@gmail.com>> wrote: Thank you for your reply. However, my questions referred to whether a 3D Flair could also work for pial surface correction, or only 3D T2 flair is suitable and if it is ok for all participants not to have the same slice thickness on Flair, as I previously wrote most of my participants have slice thickness 1mm but some have 1.48 mm. Thanks again, Georgia On 6 Jan 2021, at 1:37 AM, Georgia Kapizioni <geo.kapizi...@gmail.com<mailto:geo.kapizi...@gmail.com>> wrote: Hello Freesurfer Developers, I am conducting a group analysis between a patients and a control group. I have accomplished recon-all individual analysis and I want to correct pial surface using 3D Flair. I would like to ask two specific things: 1. Is 3D Flair appropriate or only T2 Flair is recommended for such correction. From what I have read on previous posts, it is usually recommended to use T2 Flair. 2. For my data, for most of my 3D data slice thickness is 1 mm, but for some of them is 1.48 mm. Is that difference going to affect analysis results? Thank you in advance, Georgia ________________________________ 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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