When using numerical models for hydraulic simulations of rivers, calibration is key to be able to reflect accurately the interaction of water flow in the channel and to make it resemble what is observed. In this study, a calibrated two-dimensional hydraulic model was created for two control paths located in the Ahogados and Tempisquito rivers. Paths were analyzed morphologically from a grain-size analysis and the different roughness coefficients were calculated through a numerical model using the empirical equations known as “Strickler-type” as a first approximation and later adjustment by a factor obtained from comparing the observed and simulated data. It was identified that both paths are mountain rivers with beds of coarse material, mostly boulders (cobble gravel) and pebble gravel. Calibrated roughness coefficients were determined with an error percentage between the area of the pattern formed by the simulated and observed of less than 10%, and new empirical equations adjusted to the characteristics of the riverbeds were formulated.