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Imbalanced class distribution and missing data are two common problems and occurrences in water quality anomaly detection domain. Learning algorithms in an imbalanced dataset can yield an overrated classification accuracy driven by a bias towards the majority class at the expense of the minority class. On the other hand, missing values in data can induce complexity in the learning classifiers during data analysis. These two problems pose substantial challenges to the performance of learning algorithms in real-life water quality anomaly detection problems. Hence, the need for them to be carefully considered and addressed to achieve better performance. In this paper, the performance of a range of several combinations of techniques to deal with imbalanced classes in the context of binary-imbalanced water quality anomaly detection problem and the presence of missing values is extensively compare. The …