To cite package ‘SANTA’ in publications use:

  Cornish AJ, Markowetz F. SANTA: Quantifying the Functional Content of
  Molecular Networks, PLOS Computational Biology 10:e1003808, 2014.

A BibTeX entry for LaTeX users is

  @Article{,
    author = {Alex J Cornish and Florian Markowetz},
    title = {SANTA: Quantifying the Functional Content of Molecular Networks.},
    journal = {PLOS Computational Biology},
    year = {2014},
    volume = {10},
    pages = {e1003808},
    number = {9},
    doi = {10.1371/journal.pcbi.1003808},
  }