To cite package ‘cicero’ in publications use:

  Hannah A. Pliner, Jay Shendure & Cole Trapnell et. al. (2018). Cicero
  Predicts cis-Regulatory DNA Interactions from Single-Cell Chromatin
  Accessibility Data. Molecular Cell, 71, 858-871.e8.

A BibTeX entry for LaTeX users is

  @Article{,
    title = {Cicero Predicts cis-Regulatory DNA Interactions from Single-Cell Chromatin Accessibility Data},
    journal = {Molecular Cell},
    volume = {71},
    number = {5},
    pages = {858 - 871.e8},
    year = {2018},
    issn = {1097-2765},
    doi = {https://doi.org/10.1016/j.molcel.2018.06.044},
    author = {Hannah A. Pliner and Jonathan S. Packer and José L. McFaline-Figueroa and Darren A. Cusanovich and Riza M. Daza and Delasa Aghamirzaie and Sanjay Srivatsan and Xiaojie Qiu and Dana Jackson and Anna Minkina and Andrew C. Adey and Frank J. Steemers and Jay Shendure and Cole Trapnell},
  }