Evanescent waves on a surface form due to the collective motion of charges within the medium. They do not carry any energy away from the surface and decay exponentially as a function of the distance. However, if there is any object within the evanescent field, electromagnetic energy within the medium is tunneled away and either absorbed or scattered. In this case, the absorption is localized, and potentially it can be used for selective diagnosis or nanopatterning applications. On the other hand, scattering of evanescent waves can be employed for characterization of nanoscale structures and particles on the surface. In this paper we present a numerical methodology to study the physics of such absorption and scattering mechanisms. We developed a MATLAB implementation of discrete dipole approximation with surface interaction (DDA-SI) in combination with evanescent wave illumination to investigate the near-field coupling between particles on the surface and a probe. This method can be used to explore the effects of a number of physical, geometrical, and material properties for problems involving nanostructures on or in the proximity of a substrate under arbitrary illumination.