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 derossi05@gmail.comwrote:
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
- 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