Estimation of hydraulic parameters is essential to understand the interaction between groundwater flow and seawater intrusion. Though several studies have addressed hydraulic parameter estimation, based on pumping tests as well as geophysical methods, not many studies have addressed the problem with clayey formations being present. In this study, a methodology is proposed to estimate anisotropic hydraulic conductivity and porosity values for the coastal aquifer with unconsolidated formations. For this purpose, the one-dimensional resistivity of the aquifer and the groundwater conductivity data are used to estimate porosity at discrete points.The hydraulic conductivity values are estimated by its mutual dependence with porosity and petrophysical parameters. From these estimated values, the bilinear relationship between hydraulic conductivity and aquifer resistivity is established based on the clay content of the sampled formation. The methodology is applied on a coastal aquifer along with the coastal Karnataka, India, which has significant clayey formations embedded in unconsolidated rock. The estimation of hydraulic conductivity values from the established correlations has a correlation coefficient of 0.83 with pumping test data, indicating good reliability of the methodology. The established correlations also enable the estimation of horizontal hydraulic conductivity on twodimensional resistivity sections, which was not addressed by earlier studies. The inventive approach of using the established bilinear correlations at one-dimensional to two-dimensional resistivity sections is verified by the comparison method. The horizontal hydraulic conductivity agrees with previous findings from inverse modelling. Additionally, this study provides critical insights into the estimation of vertical hydraulic conductivity and an equation is formulated which relates vertical hydraulic conductivity with horizontal. Based on the approach presented, the anisotropic hydraulic conductivity of any type aquifer with embedded clayey formations can be estimated. The anisotropic hydraulic conductivity has the potential to be used as an important input to the groundwater models.