Re: [Freesurfer] Correcting pial surface with Flair sequence

External Email - Use Caution Thank you for your help! I will try that. Best, Georgia > On 8 Jan 2021, at 6:22 PM, Georgia Kapizioni wrote: > > 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 ac

Re: [Freesurfer] Correcting pial surface with Flair sequence

d.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

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 dif

Re: [Freesurfer] Correcting pial surface with Flair sequence

: "freesurfer@nmr.mgh.harvard.edu" Subject: Re: [Freesurfer] Correcting pial surface with Flair sequence External Email - Use Caution 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 i

Re: [Freesurfer] Correcting pial surface with Flair sequence

External Email - Use Caution 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 previ

Re: [Freesurfer] Correcting pial surface with Flair sequence

d.edu" Subject: [Freesurfer] Correcting pial surface with Flair sequence External Email - Use Caution 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

[Freesurfer] Correcting pial surface with Flair sequence

External Email - Use Caution 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. I

Re: [Freesurfer] correcting pial surface

Julia, could you send a snapshot of the area in question? On Apr 2, 2012, at 5:33 AM, "Richter, Julia" wrote: > Dear freesurfer experts, > > I have several subjects whose cortical grey matter isn't included in the pial > surface. Is there any possibility to correct the pial surface? I added

[Freesurfer] correcting pial surface

Dear freesurfer experts, I have several subjects whose cortical grey matter isn't included in the pial surface. Is there any possibility to correct the pial surface? I added control points to the white matter to bring the regional white matter intensity up, but it didn't change anything in the

Re: [Freesurfer] Correcting Pial Surface

Hi Antonio, There were significant changes to FreeSurfer between January and May. You should definitely be editting on the brianmask.mgz volume and never on the brain.mgz What edits are you doing? What are you trying to accomplish? Which command are you running? and how is it not working? I'll

[Freesurfer] Correcting Pial Surface

Hi all, Regarding pial inaccuracies, should I edit brain.mgz or brainmask.mgz ? I'm asking this because it seems to me that correcting brainmask.mgz and running autorecon2 (-cp, -wm or -pial) doesn't seem to fix the problem. Furthermore, when I was going through the tutorials it suggests usin