Subject: please forward to FSL list for me and change subject
heading to: FSLVBM image input
Dear FSL users,
I have just started using the FSLVBM tools and I need
some clarification regarding image inputs. I've used fsl_vbm_bet1 -N to do
the first level of processing on my MPRAGE images but on inspecting the results
I find that the *_struc_cut.nii images have the LH side of the face
removed and lots of neck remaining and the *_struc_brain.nii still having lots
of neck left although most of the skull has been stripped. I assume that
the first *struc_cut.nii step is suppose to remove most of the neck. The
MPRAGE images are collected in sagittal orientation and FSLview displays them
with all the correct orientation labels (A,P,S,I,L,R). Do I need to re-slice
images into transaxial orientation before using the VBM scripts?