Sure you can, it works well though can take a bit of tweaking depending on the image type. I'm guessing if your BETing it's DTI and you have the B0 image, in which case:

- Run New-Segment to generate white, gray and CSF images

- Sometimes (depend on image) it is as simple as summing those 3, and thresholding at ~0.3

- B0 images are trickier (eyeballs), and so I normally do the following steps and save it as a batch to repeat on various subjects:

1. imcalc - sum c1 + c2: basic_mask

2. smooth basic_mask, usually [10 10 10]*** is fine

3. threshold ~0.1***: nodif_brain_mask

I usually throw in a couple of extra steps to input the B0, imcalc "B0.*nodiff_brain_mask"  to generate a skull stripped brain and then check reg. Altering the two parameters marked *** will normally achieve the balance your looking for.

Hope that helps,

- Chris

2011/6/10 Brahim HAMADICHAREF <[log in to unmask]>

Hi,

Under Windows You can get the bet.exe from MRIcon

and use this dos command 'bet.exe %1.img s_%1.img -f 0.5'

%1 being the image name and -f is a threshold parameter

you can play with.

Hope this helps

Brahim  

> Date: Fri, 10 Jun 2011 01:00:28 -0700
> From: [log in to unmask]
> Subject: [SPM] Using bet in spm/matlab
> To: [log in to unmask]

>
> Hi all,
>
> Could anyone please tell if we could run brain extraction tool in matlab/spm? If yes, could you please send me the relevant files for running.
>
> Thank you for your time,
> Aaryani