Dear FSL experts,
I'm trying to use vecreg to register the V1 images to MNI152 space
using the non-linear warpfield that was computed during tbss. I'm
using fsl 4.0.1
The command that I used is :
vecreg -i $sub-V1.nii -o $sub-V1_to_MNI -r ../stats/MNI152.nii.gz -
w ../FAi/$sub-fa_FAi_to_target_nonlinear.nii.gz
I applied tbss_1_preproc with a scale factor of 1 on the V1 images
before trying vecreg on them (to delete the end slices). I tried to
delete the end slices using the " X=`fslval $sub-V1 dim1` ; X=`echo
"$X 2 - p" | dc -`.................." procedure following previous
suggestions on the archives.
I also tried tbss_1_preproc with a scale factor of 10000 (to delete
the end slices and to scale the V1 to be between 0-10000) before
trying vecreg on them. Should I be scaling the V1 images at all?
Irrespective of whether I do the scaling or not, what I get looks like:
I also tried including a brain mask, but it didn't help either. Am I
doing something wrong?
Thanks,
-Merry.
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