@book{r4ds,
  title={R for Data Science: Import, Tidy, Transform, Visualize, and Model Data},
  author={Wickham, Hadley and Grolemund, Garrett},
  year={2017},
  publisher={O'Reilly Media, Inc.}
}

@book{ggplot2,
	Title = {{ggplot2}: Elegant graphics for data analysis},
	Author = {Wickham, Hadley},
	Publisher = {Springer},
	Series = {{useR}},
	Year = {2016},
}

@book{programming-with-data,
  title={Programming with data: A guide to the {S} language},
  author={Chambers, John M},
  year={1998},
  publisher={Springer}
}

@article{tidy-data,
	Author = {Wickham, Hadley},
	Journal = {The Journal of Statistical Software},
	Title = {Tidy data},
	Volume = {59},
	Year = {2014}
}

@book{wilkinson2005,
 author = {Wilkinson, Leland},
 title = {The Grammar of Graphics},
 year = {2005},
 isbn = {0387245448},
 publisher = {Springer-Verlag},
 address = {Berlin, Heidelberg},
 doi = {10.1007/0-387-28695-0}
}

@Manual{R-blob,
  title = {{blob}: A Simple S3 Class for Representing Vectors of Binary Data
('BLOBS')},
  author = {Hadley Wickham},
  year = {2018},
  note = {R package version 1.1.1},
  url = {https://CRAN.R-project.org/package=blob},
}

@Manual{R-broom,
  title = {{broom}: Convert Statistical Analysis Objects into Tidy Tibbles},
  author = {David Robinson and Alex Hayes},
  year = {2018},
  note = {R package version 0.5.1},
  url = {https://CRAN.R-project.org/package=broom},
}

@Manual{R-dplyr,
  title = {{dplyr}: A Grammar of Data Manipulation},
  author = {Hadley Wickham and Romain François and Lionel Henry and Kirill Müller},
  year = {2019},
  note = {R package version 0.8.3},
  url = {https://CRAN.R-project.org/package=dplyr}
}

@Manual{R-feather,
  title = {feather: {R} Bindings to the Feather {API}},
  author = {Hadley Wickham},
  year = {2019},
  note = {R package version 0.3.3},
  url = {https://CRAN.R-project.org/package=feather},
}

@Manual{R-forcats,
  title = {{forcats}: Tools for Working with Categorical Variables (Factors)},
  author = {Hadley Wickham},
  year = {2019},
  note = {R package version 0.4.0},
  url = {https://CRAN.R-project.org/package=forcats},
}

@Article{R-jsonlite,
  title = {The jsonlite Package: A Practical and Consistent Mapping Between {JSON} Data and {R} Objects},
  author = {Jeroen Ooms},
  journal = {arXiv:1403.2805 [stat.CO]},
  year = {2014},
  url = {https://arxiv.org/abs/1403.2805},
}

@Manual{R-ggplot2,
  title = {{ggplot2}: Create Elegant Data Visualisations Using the Grammar of Graphics},
  author = {Hadley Wickham and Winston Chang and Lionel Henry and Thomas Lin Pedersen and Kohske Takahashi and Claus Wilke and Kara Woo and Hiroaki Yutani},
  note = {R package version 3.2.1},
  year = {2019},
  url = {https://CRAN.R-project.org/package=ggplot2}
}

@Manual{R-glue,
  title = {{glue}: Interpreted String Literals},
  author = {Jim Hester},
  year = {2018},
  note = {R package version 1.3.0},
  url = {https://CRAN.R-project.org/package=glue}
}

@Manual{R-haven,
    title = {{haven}: Import and Export {SPSS}, {Stata}, and {SAS} Files},
    author = {Hadley Wickham and Evan Miller},
    year = {2018},
    note = {R package version 2.0.0},
    url = {https://CRAN.R-project.org/package=haven},
}

@Manual{R-hms,
  title = {{hms}: Pretty Time of Day},
  author = {Kirill Müller},
  year = {2018},
  note = {R package version 0.4.2},
  url = {https://CRAN.R-project.org/package=hms},
}

@Manual{R-lubridate,
  title = {{lubridate}: Make Dealing with Dates a Little Easier},
  author = {Vitalie Spinu and Garrett Grolemund and Hadley Wickham},
  year = {2018},
  note = {R package version 1.7.4},
  url = {https://CRAN.R-project.org/package=lubridate},
}

@Manual{R-magrittr,
  title = {{magrittr}: A Forward-Pipe Operator for {R}},
  author = {Stefan Milton Bache and Hadley Wickham},
  year = {2014},
  note = {R package version 1.5},
  url = {https://CRAN.R-project.org/package=magrittr},
}

@Manual{R-modelr,
  title = {{modelr}: Modelling Functions that Work with the Pipe},
  author = {Hadley Wickham},
  year = {2018},
  note = {R package version 0.1.2},
  url = {https://CRAN.R-project.org/package=modelr},
}

@Manual{R-purrr,
  title = {{purrr}: Functional Programming Tools},
  author = {Lionel Henry and Hadley Wickham},
  year = {2019},
  note = {R package version 0.3.3},
  url = {https://CRAN.R-project.org/package=purrr},
}

@Manual{R-readr,
  title = {{readr}: Read Rectangular Text Data},
  author = {Hadley Wickham and Jim Hester},
  year = {2018},
  note = {R package version 1.3.1},
  url = {https://CRAN.R-project.org/package=readr}
}

@Manual{R-readxl,
  title = {{readxl}: Read Excel Files},
  author = {Hadley Wickham and Jennifer Bryan},
  year = {2019},
  note = {R package version 1.3.1},
  url = {https://CRAN.R-project.org/package=readxl},
}

@Manual{R-reprex,
  title = {{reprex}: Prepare Reproducible Example Code via the Clipboard},
  author = {Jennifer Bryan and Jim Hester and David Robinson and Hadley Wickham},
  year = {2019},
  note = {R package version 0.3.0},
  url = {https://CRAN.R-project.org/package=reprex}
}

@Manual{R-rvest,
  title = {{rvest}: Easily Harvest (Scrape) Web Pages},
  author = {Hadley Wickham},
  year = {2019},
  note = {R package version 0.3.4},
  url = {https://CRAN.R-project.org/package=rvest},
}

@Manual{R-stringr,
  title = {{stringr}: Simple, Consistent Wrappers for Common String Operations},
  author = {Hadley Wickham},
  year = {2019},
  note = {R package version 1.4.0},
  url = {https://CRAN.R-project.org/package=stringr},
}

@Manual{R-tibble,
  title = {{tibble}: Simple Data Frames},
  author = {Kirill Müller and Hadley Wickham},
  year = {2018},
  note = {R package version 2.1.3},
  url = {https://CRAN.R-project.org/package=tibble},
}

@Manual{R-tidyr,
  title = {{tidyr}: Tidy Messy Data},
  author = {Hadley Wickham and Lionel Henry},
  year = {2019},
  note = {R package version 1.0.0},
  url = {https://CRAN.R-project.org/package=tidyr},
}

@Manual{R-googledrive,
    title = {{googledrive}: An Interface to Google Drive},
    author = {Lucy {D'Agostino McGowan} and Jennifer Bryan},
    year = {2019},
    note = {R package version 0.1.3},
    url = {https://CRAN.R-project.org/package=googledrive},
  }

@Manual{R-tidymodels,
    title = {{tidymodels}: Easily Install and Load the 'Tidymodels' Packages},
    author = {Max Kuhn and Hadley Wickham},
    year = {2018},
    note = {R package version 0.0.2},
    url = {https://CRAN.R-project.org/package=tidymodels},
  }

@Manual{R-shiny,
    title = {{shiny}: Web Application Framework for {R}},
    author = {Winston Chang and Joe Cheng and JJ Allaire and Yihui Xie and Jonathan McPherson},
    year = {2019},
    note = {R package version 1.3.2},
    url = {https://CRAN.R-project.org/package=shiny},
  }

@Manual{R-rmarkdown,
    title = {{rmarkdown}: Dynamic Documents for {R}},
    author = {JJ Allaire and Yihui Xie and Jonathan McPherson and Javier Luraschi and Kevin Ushey and Aron Atkins and Hadley Wickham and Joe Cheng and Winston Chang and Richard Iannone},
    year = {2018},
    note = {R package version 1.12},
    url = {https://rmarkdown.rstudio.com},
  }

@Manual{R-tidyverse,
    title = {{tidyverse}: Easily Install and Load the 'Tidyverse'},
    author = {Hadley Wickham},
    year = {2017},
    note = {R package version 1.2.1},
    url = {https://CRAN.R-project.org/package=tidyverse},
  }

@Manual{R-core,
    title = {R: A Language and Environment for Statistical Computing},
    author = {{R Core Team}},
    organization = {R Foundation for Statistical Computing},
    address = {Vienna, Austria},
    year = {2019},
    url = {https://www.R-project.org/},
  }

@article{Bioconductor,
    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 others},
    year = {2004},
    title = {Bioconductor: open software development for computational biology and bioinformatics},
    journal = {Genome Biology},
    volume = {5},
    number = {10},
    pages = {R80},
}

@article{Huber2015,
    author = {W. Huber and V. J. Carey and R. Gentleman and S. Anders and M. Carlson and B. S. Carvalho and H. C. Bravo and S. Davis and L. Gatto and T. Girke and R. Gottardo and F. Hahne and K. D. Hansen and R. A. Irizarry and M. Lawrence and M. I. Love and J. MacDonald and V. Obenchain and A. K. {Ole's} and H. {Pag`es} and A. Reyes and P. Shannon and G. K. Smyth and D. Tenenbaum and L. Waldron and M. Morgan},
    title = {{O}rchestrating high-throughput genomic analysis with {B}ioconductor},
    journal = {Nature Methods},
    year = {2015},
    volume = {12},
    number = {2},
    pages = {115--121},
    url = {https://www.nature.com/articles/nmeth.3252},
  }

@Manual{R-Biobase,
  title = {Biobase: Base functions for Bioconductor},
  author = {R. Gentleman and V. Carey and M. Morgan and S. Falcon},
  year = {2019},
  note = {R package version 2.46.3},
}

@Manual{R-datatable,
    title = {{data.table}: Extension of `data.frame`},
    author = {Matt Dowle and Arun Srinivasan},
    year = {2019},
    note = {R package version 1.12.6},
    url = {https://CRAN.R-project.org/package=data.table},
  }

@Manual{R-xml2,
  title = {{xml2}: Parse {XML}},
  author = {Hadley Wickham and Jim Hester and Jeroen Ooms},
  year = {2019},
  note = {R package version 1.2.2},
  url = {https://CRAN.R-project.org/package=xml2},
}
