@article{Gentleman:2004,
  author =	 {Gentleman, Robert C and Carey, Vincent J and Bates,
                  Douglas M and Bolstad, Ben and Dettling, Marcel and
                  Dudoit, Sandrine and Ellis, Byron and Gautier,
                  Laurent and Ge, Yongchao and Gentry, Jeff and
                  Hornik, Kurt and Hothorn, Torsten and Huber,
                  Wolfgang and Iacus, Stefano and Irizarry, Rafael and
                  Leisch, Friedrich and Li, Cheng and Maechler, Martin
                  and Rossini, Anthony J and Sawitzki, Gunther and
                  Smith, Colin and Smyth, Gordon and Tierney, Luke and
                  Yang, Jean Y H and Zhang, Jianhua},
  title =	 {{Bioconductor: open software development for
                  computational biology and bioinformatics.}},
  journal =	 {Genome Biology},
  year =	 {2004},
  volume =	 {5},
  number =	 {10},
  pages =	 {R80},
  doi =		 {10.1186/gb-2004-5-10-r80},
  pubmed =	 {15461798}
}

@Article{10.1371/journal.pcbi.1003118,
  title = {Software for Computing and Annotating Genomic Ranges},
  Author = {Michael Lawrence and Wolfgang Huber and Herv\'e Pag\`es
                and Patrick Aboyoun and Marc Carlson and Robert
                Gentleman and Martin Morgan and Vincent Carey},
  year = 2013,
  journal = {{PLoS} Computational Biology},
  volume = 9,
  issue = 8,
  doi = {10.1371/journal.pcbi.1003118},
}

@Inbook{Leisch2002,
  author="Friedrich Leisch",
  editor="Wolfgang H{\"a}rdle and Bernd R{\"o}nz",
  chapter="Sweave: Dynamic Generation of Statistical Reports Using Literate Data Analysis",
  title="Compstat: Proceedings in Computational Statistics",
  year="2002",
  publisher="Physica-Verlag HD",
  address="Heidelberg",
  pages="575--580",
  isbn="978-3-642-57489-4",
  doi="10.1007/978-3-642-57489-4_89",
  url="http://leisch.userweb.mwn.de/Sweave/"
}

@Book{Xie2015,
  title = {Dynamic Documents with {R} and knitr},
  author = {Yihui Xie},
  publisher = {Chapman and Hall/CRC},
  address = {Boca Raton, Florida},
  year = {2015},
  edition = {2nd},
  note = {ISBN 978-1498716963},
  url = {http://yihui.name/knitr/},
}

@InCollection{Xie2014,
  booktitle = {Implementing Reproducible Computational Research},
  editor = {Victoria Stodden and Friedrich Leisch and Roger D. Peng},
  title = {knitr: A Comprehensive Tool for Reproducible Research in {R}},
  author = {Yihui Xie},
  publisher = {Chapman and Hall/CRC},
  year = {2014},
  note = {ISBN 978-1466561595},
  url = {http://www.crcpress.com/product/isbn/9781466561595},
}

@Book{Xie2018,
  title = {R Markdown: The Definitive Guide},
  author = {Yihui Xie and J.J. Allaire and Garrett Grolemund},
  publisher = {Chapman and Hall/CRC},
  address = {Boca Raton, Florida},
  year = {2018},
  note = {ISBN 9781138359338},
  url = {https://bookdown.org/yihui/rmarkdown},
}
