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An intrusion detection system is a security system that aims to detect sabotage and intrusions on networks to inform experts of the attack and abuse of the network. Different classification methods have been used in the intrusion detection systems such as fuzzy, genetic algorithms, decision trees, artificial neural networks, and support vector machines. Moreover, ensemble classifiers have shown more robust and effective performance for various tasks in the field. In this paper, we adopt ensemble models in order to improve the performance of intrusion detection and, at the same time, decrease the false alarm rate. We use kNN for multi-class classification, as well as SVM to approach the classification problem in normal-based detection. In order to combine multiple outputs, we use the Dempster–Shafer method in which there is the possibility of explicit retrieval of uncertainty. Moreover, we utilize deep learning for extracting features to train the samples, selected by the sample selection algorithm based on ensemble margin. We compare our results with state-of-the-art methods on benchmarking datasets such as UNSW-NB15, CICIDS2017, and NSL-KDD. Our proposed method indicates the superiority in terms of prominent metrics Accuracy, Precision, Recall, and F-measure. [ABSTRACT FROM AUTHOR]