Hi Douglas,

Thanks a lot for your suggestion.

It is really strange that I don't find bbregister in the file foler of the freesurfer on my machine. But I find a program named "fslregister". Is that the same?

If they are different, is it that I need to update my version of freesurfer so that I can have the program bbregister?

Thanks a lot.

Best,

Xiaoying

2011/5/21 Douglas Greve <greve@nmr.mgh.harvard.edu>

If you have a T1 that you've run through FS and are happy with the skull
strip, then you can register your T2 with the FS anatomical (with
bbregister), then map the skull stripped T1 into the T2 space
(mri_vol2vol), then apply it to the T2 (mri_mask).

doug

On 5/21/11 7:27 PM, Bruce Fischl wrote:
> Hi Xiaoying,
>
> unfortunately there isn't. I would recommend BET (from the FSL).
>
> cheers
> Bruce
> On Sat, 21 May 2011,
> Xiaoying Tang wrote:
>
>> Hi All,
>>
>> I am wondering whether there is any way to skull strip a T2 image using
>> freesurfer. I tried to use the same way as for skullstripping T1 image, but
>> always failed.
>>
>> I would be most grateful if someone can give me some suggestion.
>>
>> Best,
>> Xiaoying Tang
>>

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