With qMRI becoming the norm in obtaining quantitative values for most MRI studies, there is still a need for its validation as new techniques are constantly being implemented. With this in mind, we propose a matter microstructure atlas of the rat spinal cord based on high-resolution histology. This atlas contains morphometric data such as axon density, axon diameter and g-ratio. Furthermore, a clustering algorithm was implemented to generate white matter tracts delineation based on axon morphometry, possibly leading to an improvement on outdated atlases. The proposed atlas is open access and can be used for quantitative comparisons with qMRI studies.