sorry, I think >=5 is in brain
On Mon, 24 Nov 2014, Gunjan Gautam wrote:
Hi Bruce,
What about the voxels having value equal to 5 (if exists) ?
Gunjan
On Sun, Nov 23, 2014 at 10:39 PM, Gunjan Gautam <gunjan.gemin...@gmail.com>
wrote:
Ok thank you Bruce
On Nov 23, 2014 10:37 PM, "Bruce Fischl"
<fis...@nmr.mgh.harvard.edu> wrote:
we don't have a binary one, but all voxels in
brainmask.mgz that are >5 are in brain and
everything <5 is not in brain
cheers
Bruce
On Sun, 23 Nov 2014, Gunjan Gautam wrote:
Thanks,
And what about the binary brain mask? I
am able to see only the stripped
volume but need the binary brain mask as
well.
Gunjan
On Nov 23, 2014 8:49 PM, "Bruce Fischl"
<fis...@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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