To cite package ‘SingleCellExperiment’ in publications use:

  Amezquita R, Lun A, Becht E, Carey V, Carpp L, Geistlinger L, Marini
  F, Rue-Albrecht K, Risso D, Soneson C, Waldron L, Pages H, Smith M,
  Huber W, Morgan M, Gottardo R, Hicks S (2020). “Orchestrating
  single-cell analysis with Bioconductor.” _Nature Methods_, *17*,
  137-145. <https://www.nature.com/articles/s41592-019-0654-x>.

A BibTeX entry for LaTeX users is

  @Article{,
    title = {Orchestrating single-cell analysis with Bioconductor},
    author = {Robert Amezquita and Aaron Lun and Etienne Becht and Vince Carey and Lindsay Carpp and Ludwig Geistlinger and Federico Marini and Kevin Rue-Albrecht and Davide Risso and Charlotte Soneson and Levi Waldron and Herve Pages and Mike Smith and Wolfgang Huber and Martin Morgan and Raphael Gottardo and Stephanie Hicks},
    year = {2020},
    volume = {17},
    pages = {137--145},
    journal = {Nature Methods},
    url = {https://www.nature.com/articles/s41592-019-0654-x},
  }