To cite package 'CoGAPS' in publications use:

  E.J. Fertig, J. Ding, A.V. Favorov, G. Parmigiani, and M.F. Ochs
  (2010) CoGAPS: an integrated R/C++ package to identify overlapping
  patterns of activation of biological processes from expression data.
  Bioinformatics 26:2792-2793.

A BibTeX entry for LaTeX users is

  @Article{,
    title = {{CoGAPS: an integrated R/C++ package to identify overlapping patterns of activation of biological processes from expression data}},
    author = {Elana J. Fertig and Jie Ding and Alexander V. Favorov and Giovanni Parmigiani and Michael F. Ochs},
    year = {2010},
    journal = {Bioinformatics},
    volume = {26},
    number = {21},
    pages = {2792--2793},
  }