Abstract Photomultiplier tubes (PMTs) are widely used in particle experiments for photon detection. PMT waveform analysis is crucial for high-precision measurements of the position and energy of incident particles in liquid scintillator (LS) detectors. A key factor contributing to the energy resolution in large liquid scintillator detectors with PMTs is the charge smearing of PMTs. This paper presents a machine-learning-based photon counting method for PMT waveforms and its application to the energy reconstruction…