Magnetic Resonance Imaging (MRI), including T1, T2*, Apparent diffusion coefficient (ADC) and Arterial Spin Labelling (ASL) perfusion, represents a powerful tool for renal investigations. This allows for simultaneous assessment of structure and function in pathologies from Acute Kidney Injury (AKI) to Chronic Kidney Dysfunction (CKD). Differentiation of the medulla and cortex is essential as these tissues have different biomarker distributions. Currently, segmentation of the biomarker histograms is carried out with manual definition of thresholds. Here, we applied K-means clustering to segment the maps and showed that this produced physiologically meaningful results while improving biomarker precision compared with whole kidney regions.