[Freesurfer] MGH/Harvard: Postdoc position in 7T brainstem fMRI and non-invasive vagus nerve stimulation

External Email - Use Caution Postdoc Position in the Department of Radiology, Massachusetts General Hospital / Harvard Medical School The Gordon Center for Medical Imaging (GCMI) in the Department of Radiology at Massachusetts General Hospital (MGH) and Harvard Medical Schoo

[Freesurfer] MGH/Harvard: Brainstem PET and DTI postdoc position

External Email - Use Caution Postdoc Position in the Department of Radiology, Massachusetts General Hospital / Harvard Medical School The Gordon Center for Medical Imaging (GCMI) in the Department of Radiology at Massachusetts General Hospital (MGH) and Harvard Medical School

Re: [Freesurfer] make_average_subject without Talairach transform

External Email - Use Caution Hi Doug I did try as you suggested and no matter what I do, I get the following error after about 10 seconds of make_average_subject. The transforms to the average chimp template are in .xfm format and are in the subject/mri/transforms folder. These

Re: [Freesurfer] question about mapping fsaverage surface atlas to subject's native volume space

But you said your atlas is in fsaverage space, no? That is a surface-defined space and you should map it to your subject using surf2surf, then use surf2vol to put it in each subject's volume space From: freesurfer-boun...@nmr.mgh.harvard.edu On Behalf Of Ren, Xueying Sent: Tuesday, April 13, 2

Re: [Freesurfer] question about mapping fsaverage surface atlas to subject's native volume space

External Email - Use Caution Hi Bruce, Thanks for the reply! I didn't convert surf2surf, but convert surf2vol since my data analysis is in volume space, do you think that might be the reason? If so, do you have any suggestions? Thank you! Caroline __

Re: [Freesurfer] Infant Freesurfer exiting without error

External Email - Use Caution Hello, I have attached the log file and the command used is the first line, please let me know if you need anything else. -Colleen From: freesurfer-boun...@nmr.mgh.harvard.edu on behalf of Zollei, Lilla,Ph.D. Sent

Re: [Freesurfer] Infant Freesurfer exiting without error

Hi Colleen, Can you send the exact command that you used and also the log file for more information? Best, Lilla From: freesurfer-boun...@nmr.mgh.harvard.edu on behalf of COLLEEN PLETCHER Sent: Tuesday, April 13, 2021 1:29 PM To: freesurfer@nmr.mgh.harvard.e

[Freesurfer] Infant Freesurfer exiting without error

External Email - Use Caution Hi, I am trying to run infant freesurfer using the --segfile and --masked options. When I attempt to run it, it runs for a bit and then I get this: USAGE: mri_or fname1 fname2 .. After this, the program exits. I am not getting any error, so I a

[Freesurfer] Install issue

External Email - Use Caution Today I tried to set up a new Freesurfer instance. It is on a Win10 system with Vmware 6.0 and Ubuntu 18 LTS. I have tried a local install and to /usr/local, but I get the same error "cannot hardlink to" And then a row of protocol errors (see att

[Freesurfer] glmfit with aseg table: view surface overlay

External Email - Use Caution Dear Freesurfer team, I am comparing subcortical volumes (aseg table) in 2 groups with no other variables. Based on the GLM lecture slides from the course I attended, I ran the following glmfit command: mri_glmfit --table aseg_table.txt --fsgd FSGD/D

[Freesurfer] preproc-sess

External Email - Use Caution Dear Experts, I’m encountering a problem when running the preproc-sess on my functional data. When using the flag -surface subject hemi i am getting ":ERROR: source volume is neither source nor target of the registration”. There is any alternative w

[Freesurfer] Postdoc Position at the Buffalo Neuroimaging Analysis Center

External Email - Use Caution Dear all, The Buffalo Neuroimaging Analysis Center (BNAC), an interdisciplinary organization that is part of the Department of Neurology of The State University of New York at Buffalo (http://secure-web.cisco.com/15d0nEH6vnvRtzz4rIsQT20HCiBgIHP2i3Sb70

Re: [Freesurfer] Freeview will not run

External Email - Use Caution Hello Aaron, The crash report lists issues with running the Qt package and that you are running zsh.   You could try running freeview under “bash” in the terminal window (which was the default in older versions of MacOS - it may tell you how to set t