[Freesurfer] convert .vtk to .annot

External Email - Use Caution Hello, everyone I have lh.labels.DKT31.manual.vtk file, but I want to convert it to lh.labels.DKT31.manual.annot. Now, I use fs6 version, if you know please tell me! I also heard that convetr .vtk to .label then convert .label to .annot, just use mri

Re: [Freesurfer] Superficial white matter surface reconstruction

Hi Jim You should be able to use mris_expand with a negative distance to generate this surface. Cheers Bruce From: freesurfer-boun...@nmr.mgh.harvard.edu On Behalf Of Gugger, James J Sent: Tuesday, December 22, 2020 11:42 AM To: freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] Superficial

Re: [Freesurfer] Question about a feature introduced in FS 7.0

External Email - Use Caution So I never got a response for my question. At least can someone tell me the recon-all flags needed after editing the aseg.presurf.mgz file. I am also assuming that this feature is also available for 7.1.1. On Wed, Dec 16, 2020 at 10:27 AM Aaron Tanenb

[Freesurfer] Superficial white matter surface reconstruction

External Email - Use Caution Good morning, I am interested in reconstructing the superficial white matter surface (i.e., the surface 1 or 2 mm below the white surface). Can you give me some guidance on how to do this or find it if it is part of recon-all? Thank you, Jim Gugger

[Freesurfer] ubuntu 20.4?

External Email - Use Caution Dear FS community, I’m following up on my previous communications about FS on Ubuntu (if interested see thread ‘FS on Ubuntu’). The advice (very useful, thank you!) given by the fsbuild team is to go with Ubuntu 18. If however, anyone out there

[Freesurfer] Error

Hello, I sent a few jobs to launchpad (FreeSurfer segmentation) and they exited with an exit=1, this is the error: "ERROR: Label FG1.mpm.vpnl does not exist in SUBJECTS_DIR fsaverage! The fsaverage link probably points to an older freesurfer version" I switched from Fs 6 to FS 7.1.1, how do I

[Freesurfer] recon labels.DKT31.manual.nii.gz appears ERROR: Talairach failed

External Email - Use Caution Hello, everyone I have download the labels.DKT31.manual.nii.gz in mindboggle datsets, I want to use recon-all command to get lh.labels.DKT31.manual.annot. But, when I run: recon-all -i labels.DKT31.manual.nii.gz -s bert5 -all, appears ERROR: Talairac

[Freesurfer] Error with command: mri_em_register: RB40_talairach_2005-07-20.gca. No such file or directory

External Email - Use Caution Dear Freesurfer experts, As indicated here https://secure-web.cisco.com/1U4b2EkUfPD8P1X6LdxE7H-WrQG5N2w5Lnh1FY6jUHMlzIGDkgsXuhR8djGms01Gch2uSXUG_nAI_lIjP0eRzcWSzoOOJSWV9hAfO95Lo3UNt2_92aO-q3zYbBidg1C1oOQUwswQTqcDIBu-cKPeV2wFoO1Dok9LCHkgI7lky_JFoea3QYv