Pietro You should first import your *.dcm files with the command
recon-all -i first_dicom_image_name.dcm -s subjID Then when you process your data you would type recon-all -s subjID -autorecon1 -autorecon2 or whatever steps you are using. Darren On Wed, Sep 26, 2012 at 9:33 AM, pietro de rossi <deross...@gmail.com>wrote: > Dear FreeSurfers, > > I am a beginner, trying to process some 3T MPRAGE scans on my own for a > project. > > I have a couple of simple questions > > > 1. When I run the recon-all –autorecon1 –autorecon2 command it asks me > for 001.mgz in mri/orig so I copy and paste the volume into the folder and > the command works. My question is: do I need to change 001.mgz to 002, 003 > an so on for every scan I process? > 2. I have to process 3T scans in a .dcm format. Can I just process the > scan as it is? Do I have to save the .dcm files as another format, maybe a > .mnc file? > > thank you very much in advance, > > Pietro > > -- > Pietro De Rossi, MD > ------------------------------------- > Sapienza Università di Roma, Facoltà di Medicina e Psicologia, > Dipartimento NESMOS (Neuroscienze, Salute Mentale, Organi di Senso), > Ospedale Sant'Andrea, Via di Grottarossa 1035-1039, 00189 Roma > > NESMOS Department (Neurosciences, Mental Health and Sensory Functions), > School of Medicine and Psychology, Sapienza University, Sant’Andrea > Hospital, Via di Grottarossa 1035-1039, 00189 Rome, Italy > > Neurobehavioral Clinical Research Section, Social and Behavioral Research > Branch, National Human Genome Research Institute (NHGRI), National > Institutes of Health (NIH), Bethesda, Maryland 20892, USA > -- Darren Gitelman, MD Northwestern University 710 N. Lake Shore Dr. Abbott 11th Floor Chicago, IL 60611 Ph: (312) 908-8614 Fax: (312) 908-5073
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