A system and method of automatic acquisition of electrophysical data points using automated setting of signal rejection criteria based on big data analysis are disclosed. The system and method are implemented by a filtering engine executed by a processor. The system and method include acquiring a data set of electrophysical maps for procedures and analyzing the data set to capture filter settings. The system and method include implementing a machine learning tool to identify an optimized filter set and filter configuration for the procedures and outputting the filter set and the filter configuration as rejection criteria default.