Hello Freesurfer experts,
I am working with a database of pre-collected scans. Although the T1 images are collected at 1x1x1 mm^3 resolution, the T2 and proton density scans are .938x.938x3 mm^3.
1) I wanted to see if you think that using the T2 scans for recon-all would hurt or help the pial reconstruction/cortical thickness measurements based on it being much thicker of a volume?
2) Would the scans help with hippocampal subfield analysis based on this resolution?
3) I am interested in using T1/T2 scans for B1 bias field correction (similar to the HCP minimum pipeline paper). I think that using these scans would be ok since the bias field is supposed to be smooth, however I wanted to see your thoughts regarding using the T2 scans of this resolution for the B1 bias-field estimation.
Any guidance to any of these questions would be much appreciated!
Sincerely,
Ajay Kurani