To cite bio3d in publications use:

Grant B, Rodrigues A, ElSawy K, McCammon J, Caves L (2006). “Bio3D: An R package for the comparative analysis of protein structures.” Bioinformatics, 22, 2695–2696.

Original article and updates are available from http://thegrantlab.org/bio3d/

Corresponding BibTeX entry:

  @Article{,
    author = {B.J. Grant and A.P.C. Rodrigues and K.M. ElSawy and J.A.
      McCammon and L.S.D. Caves},
    title = {Bio3D: An R package for the comparative analysis of
      protein structures.},
    journal = {Bioinformatics},
    year = {2006},
    volume = {22},
    pages = {2695--2696},
    month = {Nov},
    organization = {University of California, San Diego, La Jolla, CA
      92093, USA.},
  }