Re: [Freesurfer] MRI image quality metrics

2023-02-10 Thread MANSON ERIC NAAB
External Email - Use Caution Thank you very much for your quick response. I still have a challenge locating the output file after running the suggested command ( mri_cnr $SUBJECTS_DIR/bert/surf/ $SUBJECTS_DIR/bert/mri/norm.mgz) with my subject. Can you please provide me with the f

[Freesurfer] Correlating and/or linear regressing surface overlays

2023-02-10 Thread Finn, Quentin
External Email - Use Caution Freesurfer experts, I have some surface data that I'd like to correlate with some other data, although a linear regression would also be fine if I could get something like a t-stat out of it. This data came from two different PET tracers -- voxelwis

Re: [Freesurfer] Recon-all exited with errors

2023-02-10 Thread Huang, Yujing
Hi Bryna, In this tutorial, it talks about how to fix bad output from the talairach registration: https://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/Talairach Best, Yujing From: freesurfer-boun...@nmr.mgh.harvard.edu On Behalf Of Goeckner, Bryna Sent: Friday, February 10, 2023 3:35 PM T

[Freesurfer] Postdoctoral Position Available in NYC, USA

2023-02-10 Thread Tram Nguyen
External Email - Use Caution [image: image.png] The Biomarker and Dimensional Psychiatry Center at PRIME, a program within the Department of Psychiatry and Behavioral Sciences at Albert Einstein College of Medicine (Einstein), is seeking highly motivated postdoctoral scholars in

[Freesurfer] mri_easyreg tool

2023-02-10 Thread Peters, Johnny Y
External Email - Use Caution Hello FreeSurfer Developers, I'm attempting to use the mri_easyreg on the developmental version of freesurfer but I am confused about what .mgz or .nii(.gz) I am supposed to use for the reference image, floating image, and the others. I saw no previo

Re: [Freesurfer] FS FAST

2023-02-10 Thread Kumar, Avnish
It doesn't seem like your python --> /usr/bin/python3 linking is setup. Can you add these two lines to your bash_profile: alias python="python3" alias pip="pip3" Then either open a new terminal or source your bash_profile before testing that a call to python is pointing to your python3 installat

Re: [Freesurfer] [FreeSurfer] Help on installation of Freesurfer on Ubuntu 18 on Windows 11

2023-02-10 Thread fsbuild
External Email - Use Caution Hello Krystal, Doing an "upgrade" is fine, but I don't think you want to do a "dist-upgrade".   Telling the system to upgrade to the distribution likely installed something causing the conflict(s) when you tried to install the 7.3.2 release.  If