A compound channel’s discharge capacity and boundary shear force can be predicted as a sum of the discharge capacity of different sub-regions once the apparent shear stress of the dividing line is reasonably quantified. The apparent shear stress was usually expressed as a coefficient multiplied by the difference between two squared velocities of two adjacent regions. This study investigated the range of the coefficient values and their influencing factors. Firstly, the optimal values of the coefficient were obtained based on experimental data. Then, comparisons between the optimal values and several parameters used in quantifying the apparent shear stress were conducted. The results show that the coefficient is mainly related to a morphological parameter of the floodplain and the ratio of resistance coefficients between the floodplain and the main channel. An empirical formula to calculate the coefficient was developed and introduced to calculate the flow discharge and boundary shear stress. Experimental data, including 142 sets of test data of symmetric-floodplain cases and 104 sets of one-floodplain cases, have been used to examine the prediction accuracy of discharges and boundary shear stress. For all these tests, the ranges of water depth of the main channel and the total width of the compound cross-section are about 0.05~0.30 m and 0.3~10 m, respectively; the Q range and the range of Froude numbers of the main channel flow are about 0.0033~1.11 m3/s and 0.3~2.3, respectively. Comparison with other methods and experimental data from both rigid and erodible compound channels indicated that the proposed method not only provided acceptable accuracy for the computation of discharge capacity and boundary shear stress of compound channels in labs but also gave insights for calculating discharge capacity in natural compound channels.