Bathymetry from multibeam echo sounding data in Pennell Trough, Ross Sea, Antarctica was collected onboard the RVIB Nathaniel B. Palmer (NBP) 15-02 cruise using a Kongsberg EM122 operating in dual swath mode at 12 kHz frequency with a 1°×1° beam width, swath angular coverage set to 62°×62°, and 30-60% overlap between survey lines. All raw, ping-edited geophysical data collected on NBP150-02 can be accessed using the Marine Geoscience Data System (Cruise DOI: 10.7284/901477). The bathymetry dataset here is gridded at 20-m resolution with a water depth-dependent vertical resolution on the order of decimeters. Two shapefiles are provided for ice-marginal landforms and meltwater landforms observable in the bathymetry data. The purpose of collecting the bathymetry data on cruise NBP15-02 was to better understand the glacial history of the Ross Sea, and the dataset, inclusive of bathymetry data and shapefiles of glacial landforms, from Pennell Trough are used to understand impacts on subglacial channel morphology and organization during the deglaciation of the region following the Last Glacial Maximum.