To cite R in publications use:

Matzke N and Sidje R (2013). rexpokit: R wrappers for EXPOKIT; other matrix functions. University of California, Berkeley, Berkeley, CA. NOTE: The EXPOKIT FORTRAN library was published in: Sidje, R.B. (1998). A Software Package for Computing Matrix Exponentials. ACM-Transactions on Mathematical Software, 24(1):130-156. http://tinyurl.com/bwa87rq ; Also, the rexpokit package was first published in: Matzke, Nicholas J. (2012). Founder-event speciation in BioGeoBEARS package dramatically improves likelihoods and alters parameter inference in Dispersal-Extinction-Cladogenesis (DEC) analyses. Frontiers of Biogeography, 4(suppl. 1): 210. Link to abstract and PDF of poster: http://phylo.wikidot.com/matzke-2013-international-biogeography-society-poster . (Poster abstract published in the Conference Program and Abstracts of the International Biogeography Society 6th Biannual Meeting, Miami, Florida. Poster Session P10: Historical and Paleo-Biogeography. Poster 129B. January 11, 2013.), http://phylo.wikidot.com/rexpokit.

A lot of time and effort in creating EXPOKIT and rexpokit, please cite it, Sidje (1998), and Matzke (2012) when using it for publication. See also ‘citation("pkgname")’ for citing R packages.

Corresponding BibTeX entry:

  @Manual{,
    title = {rexpokit: R wrappers for EXPOKIT; other matrix functions},
    author = {Nicholas J. Matzke and Roger B. Sidje},
    organization = {University of California, Berkeley},
    address = {Berkeley, CA},
    year = {2013},
    note = {NOTE: The EXPOKIT FORTRAN library was published in: Sidje,
      R.B. (1998). A Software Package for Computing Matrix
      Exponentials. ACM-Transactions on Mathematical Software,
      24(1):130-156. http://tinyurl.com/bwa87rq ; Also, the rexpokit
      package was first published in: Matzke, Nicholas J. (2012).
      Founder-event speciation in BioGeoBEARS package dramatically
      improves likelihoods and alters parameter inference in
      Dispersal-Extinction-Cladogenesis (DEC) analyses. Frontiers of
      Biogeography, 4(suppl. 1): 210.  Link to abstract and PDF of
      poster:
      http://phylo.wikidot.com/matzke-2013-international-biogeography-society-poster
      . (Poster abstract published in the Conference Program and
      Abstracts of the International Biogeography Society 6th Biannual
      Meeting, Miami, Florida. Poster Session P10: Historical and
      Paleo-Biogeography. Poster 129B. January 11, 2013.)},
    url = {http://phylo.wikidot.com/rexpokit},
  }