Accurate and reliable measurement and prediction of the spatial and temporal distribution of rain field over a wide range of scales are important topics in hydrologic investigations. In this study, a geostatistical approach was adopted. To estimate the rainfall intensity over a study domain with the sample values and the spatial structure from the radar data, the cumulative distribution functions (CDFs) at all unsampled locations were estimated. Indicator kriging (IK) was used to estimate the exceedance probabilities for different preselected threshold levels, and a procedure was implemented for interpolating CDF values between the thresholds that were derived from the IK. Different probability distribution functions of the CDF were tested and their influences on the performance were also investigated. The performance measures and visual comparison between the observed rain field and the IK-based estimation suggested that the proposed method can provide good results of the estimation of indicator variables and is capable of producing a realistic image.