To cite package ‘QDNAseq’ in publications use:

  Scheinin I, Sie D, Bengtsson H, van de Wiel MA, Olshen AB, van Thuijl
  HF, van Essen HF, Eijk PP, Rustenburg F, Meijer GA, Reijneveld JC,
  Wesseling P, Pinkel D, Albertson DG, Ylstra B (2014). “DNA copy
  number analysis of fresh and formalin-fixed specimens by shallow
  whole-genome sequencing with identification and exclusion of
  problematic regions in the genome assembly.” _Genome Research_, *24*,
  2022-2032.

A BibTeX entry for LaTeX users is

  @Article{,
    author = {Ilari Scheinin and Daoud Sie and Henrik Bengtsson and Mark A {van de Wiel} and Adam B Olshen and Hinke F {van Thuijl} and Hendrik F {van Essen} and Paul P Eijk and Francois Rustenburg and Gerrit A Meijer and Jaap C Reijneveld and Pieter Wesseling and Daniel Pinkel and Donna G Albertson and Bauke Ylstra},
    year = {2014},
    title = {DNA copy number analysis of fresh and formalin-fixed specimens by shallow whole-genome sequencing with identification and exclusion of problematic regions in the genome assembly},
    journal = {Genome Research},
    volume = {24},
    pages = {2022--2032},
  }