@Manual{plummer2013package,
    title = {rjags: Bayesian graphical models using MCMC},
    author = {Martyn Plummer},
    year = {2013},
    note = {R package version 3-10},
    url = {http://CRAN.R-project.org/package=rjags},
  }

@article{redon2006global,
  title={Global variation in copy number in the human genome},
  author={Redon, Richard and Ishikawa, Shumpei and Fitch, Karen R and Feuk, Lars and Perry, George H and Andrews, T Daniel and Fiegler, Heike and Shapero, Michael H and Carson, Andrew R and Chen, Wenwei and others},
  journal={nature},
  volume={444},
  number={7118},
  pages={444--454},
  year={2006},
  publisher={Nature Publishing Group}
}

@article{schwarz1978estimating,
  title={Estimating the dimension of a model},
  author={Schwarz, Gideon},
  journal={The annals of statistics},
  volume={6},
  number={2},
  pages={461--464},
  year={1978},
  publisher={Institute of Mathematical Statistics}
}
@article{gentleman2004bioconductor,
  title={Bioconductor: open software development for computational biology and bioinformatics},
  author={Gentleman, R.C. and Carey, V.J. and Bates, D.M. and Bolstad, B. and Dettling, M. and Dudoit, S. and Ellis, B. and Gautier, L. and Ge, Y. and Gentry, J. and others},
  journal={Genome biology},
  volume={5},
  number={10},
  pages={R80},
  year={2004},
  publisher={BioMed Central Ltd}
}
@article{li2009sequence,
  title={The sequence alignment/map format and SAMtools},
  author={Li, H. and Handsaker, B. and Wysoker, A. and Fennell, T. and Ruan, J. and Homer, N. and Marth, G. and Abecasis, G. and Durbin, R. and others},
  journal={Bioinformatics},
  volume={25},
  number={16},
  pages={2078--2079},
  year={2009},
  publisher={Oxford Univ Press}
}

@article{nguyen2013cnvrd,
  title={CNVrd, a Read-Depth Algorithm for Assigning Copy-Number at the FCGR Locus: Population-Specific Tagging of Copy Number Variation at FCGR3B},
  author={Nguyen, Hoang T and Merriman, Tony R and Black, Michael A},
  journal={PLOS ONE},
  volume={8},
  number={4},
  pages={e63219},
  year={2013},
  publisher={Public Library of Science}
}

@article{danecek2011variant,
  title={The variant call format and VCFtools},
  author={Danecek, P. and Auton, A. and Abecasis, G. and Albers, C.A. and Banks, E. and DePristo, M.A. and Handsaker, R.E. and Lunter, G. and Marth, G.T. and Sherry, S.T. and others},
  journal={Bioinformatics},
  volume={27},
  number={15},
  pages={2156--2158},
  year={2011},
  publisher={Oxford Univ Press}
}
@article{dempster1977maximum,
  title={Maximum likelihood from incomplete data via the EM algorithm},
  author={Dempster, A.P. and Laird, N.M. and Rubin, D.B.},
  journal={Journal of the Royal Statistical Society. Series B (Methodological)},
  pages={1--38},
  year={1977},
  publisher={JSTOR}
}
@article{venkatraman2007faster,
  title={A faster circular binary segmentation algorithm for the analysis of array CGH data},
  author={Venkatraman, ES and Olshen, Adam B},
  journal={Bioinformatics},
  volume={23},
  number={6},
  pages={657--663},
  year={2007},
  publisher={Oxford Univ Press}
}

@article{nguyen2014cnvrd2,
  title={The CNVrd2 package: measurement of copy number at complex loci using high-throughput sequencing data},
  author={Nguyen, Hoang T and Merriman, Tony R and Black, Michael A},
  journal={Frontiers in Genetics},
  volume={5},
  pages={248},
  year={2014},
  publisher={Frontiers}
}