Ultrasonic pulse velocity method is a standard method for measuring elastic properties of rock cores in laboratories. Cylindrical plugs of 40–100 mm length are usually used for such measurements. It was recently shown that thin disc samples (~15 mm in length) were suitable for such measurements in the case of an advanced experimental set-up. Here we present results of numerical simulations to support the outcome of the previous work and to improve the understanding of wave propagation in the samples during laboratory ultrasonic measurements. The finite element method within Abaqus/Explicit (Dassault Systemes, Simulia) is used to simulate wave propagation along the experimental rig and the rock sample caused by transmitted ultrasonic pulse. The computational domain mimics the real geometry. The results of the numerical modelling prove that an S-wave transducer also produces a compressional wave that propagates along the sample and can be recorded by a receiver. Simulations are performed for three configurations used in real laboratory experiments. The numerically simulated waveforms are compared with the signals, recorded during laboratory experiments. Simulated travel times of elastic waves are in a good agreement with experimentally obtained results.