Objective. The brain characteristics of different people are not the same. Brain computer interfaces (BCIs) should thus be customized for each individual person. In motor-imagery based synchronous BCIs, a number of parameters (referred to as hyper-parameters) including the EEG frequency bands, the channels and the time intervals from which the features are extracted should be pre-determined based on each subject's brain characteristics. Approach. To determine the hyper-parameter values, previous work has relied on manual or semi-automatic methods that are not applicable to high-dimensional search spaces. In this paper, we propose a fully automatic, scalable and computationally inexpensive algorithm that uses Bayesian optimization to tune these hyper-parameters. We then build different classifiers trained on the sets of hyper-parameter values proposed by the Bayesian optimization. A final classifier aggregates the results of the different classifiers. Main Results. We have applied our method to 21 subjects from three BCI competition datasets. We have conducted rigorous statistical tests, and have shown the positive impact of hyper-parameter optimization in improving the accuracy of BCIs. Furthermore, We have compared our results to those reported in the literature. Significance. Unlike the best reported results in the literature, which are based on more sophisticated feature extraction and classification methods, and rely on prestudies to determine the hyper-parameter values, our method has the advantage of being fully automated, uses less sophisticated feature extraction and classification methods, and yields similar or superior results compared to the best performing designs in the literature.
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