The analysis of the densification behavior of nanporous metals in nanoindentation is challenging in simulations and experiments. Understanding the densification behavior would allow to determine the compaction of the material near the indented surface and would provide information for a more precise measurement of the yield stress from nanoindentation experiments. A two-scale model was developed that allows to predict the densification field for variable microstructure and elastic-plastic behavior free from assumptions for the boundary conditions of the micromechanical model. Furthermore, segmentation of scanning electron microscopy (SEM) images of focused ion beam (FIB) cross-sections through indented regions in nanoporous gold (np-Au) is carried out. A key challenge for image analysis of open porous materials is the appropriate binarization of the pore and gold ligament regions while excluding material lying below the cross-sectional plane. A local thresholding approach delivered local solid fractions that were free of global gradients, and delivered a quality comparable to the manual segmentation. Extracted densification profiles in simulations and experiments showed an exponential-type decay from the indenter tip towards the nominal value of 1 far from the indenter. The normalized hardness and also the depth of the densified region are determined by the macroscopic plastic deformation behavior that can be measured by macrocompression or micropillar tests.