Hi Karl,

After the white matter edits, you can run

recon-all -autorecon2-wm -autorecon3 -s <subjID> The old files will be overwritten.

Please refer to this wiki for more information on recon-all

http://surfer.nmr.mgh.harvard.edu/fswiki/recon-all

Sita.

On Thu, 11 Jun 2009, karlkarl wrote:

Hello, experts:

I have finished autorecon1-3 on the data. But now when I am examining the data, some images need skull stripping and white matter editing. So I need to rerun the steps.

If I strip the skull after autoreon1 and want to put it to autorecon2, This should be: recon-all ¨Cs <participants> -autorecon2

And after fixing white matter problem from autorecon2 This should be: recon-all ¨Cs <participants> -autorecon3

All the old files will be automatically overwritten? What is the most efficient way to redo the analysis after recon-all?

Thanks a lot!

Karl

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