To cite bnlearn in publications use the most appropriate among:

Marco Scutari, Jean-Baptiste Denis. (2014) Bayesian Networks with Examples in R. Chapman and Hall, Boca Raton. ISBN 978-1482225587.

Radhakrishnan Nagarajan, Marco Scutari, Sophie Lebre. (2013) Bayesian Networks in R with Applications in Systems Biology. Springer, New York. ISBN 978-1461464457.

Marco Scutari (2010). Learning Bayesian Networks with the bnlearn R Package. Journal of Statistical Software, 35(3), 1-22. URL http://www.jstatsoft.org/v35/i03/.

This last is the original JSS paper for the package.

Corresponding BibTeX entries:

  @Book{,
    title = {Bayesian Networks with Examples in R},
    author = {Marco Scutari and Jean-Baptiste Denis},
    publisher = {Chapman and Hall},
    address = {Boca Raton},
    year = {2014},
    note = {ISBN 978-1482225587},
  }
  @Book{,
    title = {Bayesian Networks in R with Applications in Systems
      Biology},
    author = {Radhakrishnan Nagarajan and Marco Scutari and Sophie
      Lebre},
    publisher = {Springer},
    address = {New York},
    year = {2013},
    note = {ISBN 978-1461464457},
  }
  @Article{,
    title = {Learning Bayesian Networks with the {bnlearn} {R}
      Package},
    author = {Marco Scutari},
    journal = {Journal of Statistical Software},
    year = {2010},
    volume = {35},
    number = {3},
    pages = {1--22},
    url = {http://www.jstatsoft.org/v35/i03/},
  }