Investigating the human subcortical auditory system is challenging due to the technical difficulty of in vivo MRI: the deep, small brainstem auditory nuclei require high spatial resolution, but decreasing voxel sizes reduces the signal-to-noise ratio, making the structures difficult to identify. To assist with localizing auditory structures in humans, we used high quality anatomical MRI (50 µm resolution) of a post mortem human brainstem and thalamus to create an atlas of subcortical auditory structures, which nicely corresponds with human histology and high resolution in vivo functional activation maps. Diffusion-weighted images (200 µm) from the same post mortem specimen allow us estimate connectivity between specific auditory structures, yielding a high quality, high resolution connectivity map of the subcortical auditory pathway, with applications to understanding hearing loss.