[Freesurfer] mri_vol2surf; --projfrac-avg and --projfrac-max

Dear FS Experts, When using --projfrac-max or --projfrac-avg, how is the “min” component defined? If I specify: --projfrac-max -2 1 0.1 Is the min (-2) simply 2x the thickness at each vertex below/inside the GM/WM boundary? Thanks in advance! Mitch

Re: [Freesurfer] Freesurfer/6.0.0 license

External Email - Use Caution Hello We, This page lists how to install Freesurfer 6 including an example command you can run under “Test Your

[Freesurfer] make_average_subject error

External Email - Use Caution Hello, I am trying to create an average subject from a set of subjects, but keep getting an error that says "mghRead(mri/norm.mgz, -1): could not open file". I've read that several others have solved this issue by installing the patch available at

[Freesurfer] Flip image (resize)

External Email - Use Caution Dear Experts, The fMRI data, when viewed in SPM, some images have 3x3x4 voxel dimensions and some images have -3x3x4. Should I flip the image (using resize option) so that all images will have the same dimensions? or Should I leave it without

[Freesurfer] Freesurfer/6.0.0 license

External Email - Use Caution Hello, Freesurfer experts I have used Freesurfer/6.0.0 in order to run FastSurfer

[Freesurfer] Absolute volume difference between Freesurfer 6.0 and 7.1

External Email - Use Caution I recently installed version 7.1, and I compared absolute volumes with version 6.0, and I realized that there are some significant differences in some brain structures (e.g. Hippocampus and amygdala). In some cases, the differences are more than

Re: [Freesurfer] Thalamic nuclei segmentation - PuM nucleus mis-segmentation?

Dropbox is fine. Cheers, /E Juan Eugenio Iglesias Senior research fellow CMIC (UCL), MGH (HMS) and CSAIL (MIT) http://www.jeiglesias.com From: on behalf of "Gronow, Franziska" Reply-To: Freesurfer support list Date: Wednesday, March 10, 2021 at 05:31 To: "'freesurfer@nmr.mgh.harvard.edu'"

[Freesurfer] Absolute volume difference between Freesurfer 6.0 and 7.1

External Email - Use Caution I recently installed version 7.1, and I compared absolute volumes with version 6.0, and I realized that there are some significant differences in some brain structures (e.g. Hippocampus and amygdala). In some cases, the differences are more than

Re: [Freesurfer] Matlab version 2012b installation problem

External Email - Use CautionHello Andrew, Thank you once again for your help and apologies for writing one more time, but it seems that Freesurfer cannot detect/recognise Matlab. When I tried to ran local gyrification index for one participant, I got the following error:recon-all

[Freesurfer] Thalamic nuclei segmentation - PuM nucleus mis-segmentation?

External Email - Use Caution Dear Eugenio, thanks for your response. I wasn't sure whether .mgz files contain patient information so I had to clarify that. It would be great if you could take a look on the affected cases. I could send you norm.mgz files of one or more