Hi,
I am new to freesurfer. I would like to know the command for subcortical segmentation of brain MRI volume. I read on freesurfer wiki page the recon-all -autorecon2 stage is useful for this. *My question is what exact command should I use for this purpose.* I am familiar with FSL. In FSL 'FIRST' command is useful for this and it gives you segmentaion in approimately 7-10 minutes. But in freesurfer it is written that recon-all -autorecon2 stage can take upto 12 hours for segmentation of one volume. I would like to know if there is any other option for this apart from autorecon2 stage which can give me segmentation in less time.
Thank you for your help.
Regards, Raghav Mehta MS by Research (ECE) Center for Visual Information Technology International Institute of Information Technology - Hyderabad +91 9712990393