The dataset is composed of two tables containing data collected during screening surveys for invasive Round Goby (Neogobius melanostomus) on the Eastern Erie Canal in New York. Environmental DNA using water samples and traditional fish surveys using benthic trawling, seining, and trapping were conducted twice annually at 12 sites on the Eastern Erie Canal between Oneida Lake and the Hudson River from 2016-2019. Study sites were selected to be approximately equidistant apart (approximately 20 km) while also taking advantage of suitable access points. Within a study site, the exact areas that were sampled were often staggered by 500 m or occasionally more in order to find appropriate habitat for each gear type (i.e., wadable habitat for seining and habitat free of snags for trawling). The first table "EnvironmentalDNAdata" contains environmental DNA data and the second table "FishCaptureData" contains fish community data from the three traditional fish sampling methods.