Freesurfer February 2023

freesurfer@nmr.mgh.harvard.edu

85 participants
122 discussions

FreeSurfer load nifti error
by Siamak Sorooshyari 01 Feb '23

01 Feb '23

External Email - Use Caution Dear FreeSurfer, I am using the FieldTrip software to process MEG data, it involves my using the function ft_read_mri() in MATLAB to read in the anatomical MRI file. I have tried feeding into this function a .nii.gz as well as the unzipped .nii version. In the latter case I get an error: ERROR: D:\...\anat\sub-0249_ses-01_run-1_T1w.nii, read in 21626880 voxels, expected 10813440 I contacted the FieldTrip folks and they mentioned that it's a FreeSurfer issue. I think I've isolated the issue to the load_nifti.m file with the "nitemsread" variable and "nvoxels" variables not matching in value. I am not clear why this would happen, how can this be fixed? Best, Siamak

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Correlating two modalities in group-level surface-based analyses
by Betsy Bartlett 01 Feb '23

01 Feb '23

External Email - Use Caution Hello, Does Freesurfer offer the option for group-level surface-based vertex-wise analyses comparing two imaging modalities? For example, I want to find clusters of vertices where cortical thickness and a PET, DTI, or fMRI measure mapped onto the surface are significantly correlated in my cohort of subjects. If this is possible in Freesurfer, is there any existing documentation you could point me to for setting up the fsgd and contrast files? Thank you!

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Freesurfer February 2023