Methods and systems are provided for whole-body spine labeling. In one embodiment, a method comprises acquiring a non-functional image volume of a spine, acquiring a functional image volume of the spine, automatically labeling the non-functional image volume with spine labels, automatically correcting the geometric misalignments and registering the functional image volume, and propagating the spine labels to the functional image volume. In this way, the anatomical details of non-functional imaging volumes may be leveraged to improve clinical diagnoses based on functional imaging, such as diffusion weighted imaging (DWI).