To cite package ‘systemPipeR’ in publications use:

  Backman TWH, Girke T (2016) systemPipeR: NGS workflow and report
  generation environment. BMC Bioinformatics 17 (1), doi:
  10.1186/s12859-016-1241-0.

A BibTeX entry for LaTeX users is

  @Article{,
    title = {systemPipeR: NGS workflow and report generation environment},
    author = {Tyler W. H. Backman and Thomas Girke},
    year = {2016},
    month = {sep},
    publisher = {Springer Science and Business Media {LLC}},
    journal = {BMC Bioinformatics},
    doi = {10.1186/s12859-016-1241-0},
    url = {https://doi.org/10.1186/s12859-016-1241-0},
    volume = {17},
    number = {1},
  }