you will need to extract them from the archive into a directory, then give recon-all a *single* dicom file from each T1-weighted series that you want to motion correct and average (if you only hae one, then just specify one). Something like:
recon-all -i <path to 1 dicom file> -sd <path to dir to put all subjects> \ -s <subject identifier> -all
cheers Bruce
On Mon, 5 Aug 2019, Jiajun Luo wrote:
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Hi,
I am beginner for FreeSurfer... I want to run recon-all on my MRI T1 data. I have a series of dcm files for an individual and these dcm files are archived in a tgz file. What should I import to FreeSurfer for recon-all? A single dcm file, or some selected dcm files, or all dcm files, or the archived tgz file? Do I need to convert these dcm files to certain types of files?
Thank you! Jiajun