We develop numerical tools to detect and quantify the mass and area for all structures of a protoplanetary disk with different optical depths. We consider two planets of 0.1 MJ. They are initially at 12.5 and 20 AU embedded in a viscous disk, where planetary mass accretion and migration are allowed. We find a gap region with optically thick streams, this region is characterized by an optically thin filling factor near to 1. Additionally, we generate the Spectral Energy Distribution of each structure of the disk considering silicate dust. Our tools are useful to identify the locations of structures and sub-structures as possible sites where the material is accumulated.