Hi Baixiong,
Assuming that you properly ran DTIFIT between eddy_correct and your calculation of RD (L23) to get your diffusion maps, then I'd agree that all makes sense.
(I'm less familiar with fslroi to extract volumes from a 4D dataset though; you might find fslselectvols to be more intuitive if you're only wanting to grab one volume from a 4D dataset).
Iain
Dear all,
I installed version fsl6.0. I preprocessed DTI data using the following scripts: is that right? is that enough?
fslroi MS01.nii.gz b0 0 -1 0 -1 0 -1 0 1
Bet2 b0.nii.gz nodif_brain –m –f 0.3
eddy_correct MS01.nii.gz data 0
Get L23: fslmaths L2_image -add L3_image -div 2 L23
Best
Baixiong
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