Hi,
if you do
bet nodif nodif_brain -m
you can spare
fslmaths nodif_brain -bin nodif_brain_mask
Otherwise it looks good.
Cheers,
Andreas
Am 12.06.14 21:57 schrieb "Sarah Wyn" unter <[log in to unmask]>:
>Hello,
>
>I have two sets of diffusion data for each of my participants (each set
>is 32 directions). If I want to combine them before running dtifit is
>the following code correct? In particular, do I need to do anything in
>between running eddy_correct and bet to somehow average the two
>acquisitions??
>
>fslmerge -t combo.nii.gz data1.nii.gz data2.nii.gz
>
>eddy_correct combo 0
>
>fslroi data nodif 0 1
>bet nodif nodif_brain
>slicer nodif nodif_brain -a nodif_overlay.png
>fslmaths nodif_brain -bin nodif_brain_mask
>
>dtifit --data=data --out=dti --mask=nodif_brain_mask --bvecs=bvecs
>--bvals=bvals
>
>Any and all help greatly appreciated!!
>
>Best,
>
>Sarah
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