On Nov 23, 2014 8:49 PM, "Bruce Fischl" <fischl@nmr.mgh.harvard.edu> wrote:

Hi Gunjan

15 min is about what it is going to take. You could do it faster but then the failure rate would go up. We've tuned it to improve automaticity and reduce failures quite a bit.

cheers
Bruce


On Sat, 22 Nov 2014, Gunjan Gautam wrote:

Hi,

I used recon-all with all and its taking a lot of time. My main concern is
only to get the stripped brain.
I tried with autorecon1 as well but its also taking not less than 15min and
I need to deal with a huge data. 
Last stage of autorecon1 is skull stripping which takes the NU corrected
input (as it FS works as a pipeline). Is there any way to directly get the
"stripped brain" and its binary mask.

I also need to ask, which file of the output (name with extension) is the
"binary brain mask" ?

Best regards,
Gunjan

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