atlas difference in different spaces

[cindyhfls]

Hi Dr. Tian

I think you said something about the subcortical mask CIFTI file and the NIFTI files don't match in the notes. Can you explain how you get the mask? Is it mask on each subject based on freesurfer aseg then aligned to the MNI 6th gen template (I thought that was how CIFTI files were created, but I am not 100% sure, code below)? Which space would you recommend us to resample the processed data into for using the atlas?

https://github.com/Washington-University/HCPpipelines/blob/master/fMRISurface/scripts/SubcorticalProcessing.sh

Thank you!
Cindy

[cindyhfls]

@yetianmed would you be able to share the example file name/path that was used for "Minimally preprocessed volumetric rfMRI and tfMRI data were sourced from the online HCP repository."