Hello,
I have a query regarding the outputs of fsl_anat from fsl version 5.0.8.
Following fsl_anat the partial volume estimates are in native space. Are the subcortical volumes also calculated from native space?
I am comparing controls to a disease group, is there any value in transforming both outputs into nonlinear jacobian space? If yes, is it possible/does it make sense to use ‘applywarp’ function on a T1_first_all_fast_firstseg.nii file?
Likewise, is there a value in performing shape (vertex) analysis in nonlinear jacobian space? If yes, would I use the –r argument in first_utils to call the jacobian image alongside the –useReconMNI argument?
Many thanks in advance for your help.
Therese
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