[Freesurfer] Magnetization Transfer Images and recon-all

External Email - Use Caution Hi! I have a couple of Magnetization Transfer MR images from a group of patients which I would like to analyze using the FreeSurfer pipeline. However, when applying "recon-all" to those images, the algorithm stops after just a few minutes. Although

[Freesurfer] Total volumes SAMSEG

External Email - Use Caution Dear SAMSEG developers, Is there an easy way/specific function to compute the total volumes (GM, WM and Total Brain) after the cross sectional processing pipeline has been run? I currently add the volumes specified here: MorphometryStats - Free Surfer

Re: [Freesurfer] Inflated surfaces on FS7 looking different

External Email - Use Caution Hi Douglas, thank for you reply. I have a windows 10 pc and I'm using the ubuntu app (version 18.04.5) to run FreeSurfer 7.1.1. I am using Xming 6.9.0.31 as a visual platform to open freeview. Maybe it could be a windows-specific problem? Best, Diana.

Re: [Freesurfer] Inflated surfaces on FS7 looking different

From the screenshot it looks like a remote display issue. Maybe you can try a different X client, such as MobaXterm (https://mobaxterm.mobatek.net) ? Ruopeng On Oct 29, 2021, at 5:54 AM, DIANA ORTEGA CRUZ <100315...@alumnos.uc3m.es> wrote: External Em

[Freesurfer] results visualization

External Email - Use Caution Dear experts, Do you know what are the steps to follow to visualize a surface-map of freesurfer results in Caret? Thank you very much in advance. Best regards, Marina ___ Freesurfer mailing list Freesurfer@n

[Freesurfer] developer password

External Email - Use Caution Hello, I am hoping to use Freesurfer on Windows 10. I have tried to use VirtualBox, but it requires a developer password. I have seen many emails on this mailing list where the password is provided through email. Is it possible to have a copy sent t

Re: [Freesurfer] developer password

External Email - Use Caution Sure - sending password and upgrade instructions to your private email shortly. - R. On Oct 29, 2021, at 13:55, Eli Bulger wrote:External Email - Use CautionHello,I am hoping to use Freesurfer on Windows 10. I hav

Re: [Freesurfer] Registering DTI fiber tracts (from MRtrix3) to FreeSurfer registered surfaces.

Hi Reshma, Yes, you would use the FreeSurfer Longitudinal pipeline to process the two structural timepoints for your subject. Try running dt_recon on your DTI data. For more information on the dt_recon command and diffusion analysis in Freesurfer please refer to these sites: dt_recon

Re: [Freesurfer] results visualization

Hi Marina, You may want to try mris_convert or mri_surf2surf to convert the surfaces to a readable file in Caret. For more information on either of these, please refer to the link f

[Freesurfer] adding covariates to a longitudinal glmfit model

External Email - Use Caution Hi Experts, After completing long_mris_slopes to get the rate of change and then concatenating them into one.mgh file for group analysis (mris_preproc). I am finally getting to mris_glmfit. Got a couple of questions along the way. 1). if I conducted lo