Brain–computer interfaces (BCIs) based on steady-state visually evoked potentials (SSVEPs) are inexpensive and do not require user training. However, the highly personalized reaction to visual stimulation is an obstacle to the wider application of this technique, as it can be ineffective, tiring, or even harmful at certain frequencies. In our experimental study, we proposed a new approach to the selection of optimal frequencies of photostimulation. By using a custom photostimulation device, we covered a frequency range from 5 to 25 Hz with 1 Hz increments, recording the subjects’ brainwave activity (EEG) and analyzing the signal-to-noise ratio (SNR) changes at the corresponding frequencies. The proposed set of SNR-based coefficients and the discomfort index, determined by the ratio of theta and beta rhythms in the EEG signal, enables the automation of obtaining the recommended stimulation frequencies for use in SSVEP-based BCIs.