The pore-throat radius of the shale oil reservoir is extremely small, and it is difficult to accurately obtain the absolute permeability and oil–water two-phase relative permeability of the actual oil reservoir through conventional core experiments. However, these parameters are very important for reservoir numerical simulation. In this paper, a method for characterizing flow parameters based on a pore network model that considers differential pressure flow and diffusion flow is proposed. Firstly, a digital core was reconstructed using focused ion beam scanning electron microscopy (FIB-SEM) from the Gulong shale reservoir in the Songliao Basin, China, and a pore network model was extracted. Secondly, quasi-static single-phase flow and two-phase flow equations considering diffusion were established in the pore network model. Finally, pore-throat parameters, absolute permeability, and oil–water two-phase permeability curves were calculated, respectively. The results show that the pore-throat distribution of the Gulong shale reservoir is mainly concentrated in the nanometer scale; the mean pore radius is 87 nm, the mean throat radius is 41 nm, and the mean coordination number is 3.97. The calculated permeability considering diffusion is 0.000124 mD, which is approximately twice the permeability calculated without considering diffusion. The irreducible water saturation of the Gulong shale reservoir is approximately 0.4, and the residual oil saturation is approximately 0.35. The method proposed in this paper can provide an important approach for characterizing the flow parameters of similar shale oil reservoirs.