To cite package ‘bsseq’ in publications use:

  Hansen KD, Langmead B, Irizarry RA (2012). “BSmooth: from whole
  genome bisulfite sequencing reads to differentially methylated
  regions.” _Genome Biology_, *13*(10), R83.
  doi:10.1186/gb-2012-13-10-r83
  <https://doi.org/10.1186/gb-2012-13-10-r83>.

A BibTeX entry for LaTeX users is

  @Article{,
    title = {{BSmooth: from whole genome bisulfite sequencing reads to differentially methylated regions}},
    author = {Kasper D. Hansen and Benjamin Langmead and Rafael A. Irizarry},
    journal = {Genome Biology},
    year = {2012},
    volume = {13},
    number = {10},
    pages = {R83},
    doi = {10.1186/gb-2012-13-10-r83},
    pubmed = {23034175},
  }