packages.bib

@Manual{R-base,
  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/},
}
@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 2.44.0},
}
@Manual{R-BiocGenerics,
  title = {BiocGenerics: S4 generic functions used in Bioconductor},
  author = {The Bioconductor Dev Team},
  year = {2019},
  note = {R package version 0.30.0},
}
@Manual{R-BiocParallel,
  title = {BiocParallel: Bioconductor facilities for parallel evaluation},
  author = {Martin Morgan and Valerie Obenchain and Michel Lang and Ryan Thompson and Nitesh Turaga},
  year = {2019},
  note = {R package version 1.18.0},
  url = {https://github.com/Bioconductor/BiocParallel},
}
@Manual{R-bookdown,
  title = {bookdown: Authoring Books and Technical Documents with R Markdown},
  author = {Yihui Xie},
  year = {2019},
  note = {R package version 0.13},
  url = {https://CRAN.R-project.org/package=bookdown},
}
@Manual{R-CAMERA,
  title = {CAMERA: Collection of annotation related methods for mass spectrometry
data},
  author = {Carsten Kuhl and Ralf Tautenhahn and Hendrik Treutler and Steffen Neumann {ckuhl|htreutle|sneumann}@ipb-halle.de and {rtautenh@scripps.edu}},
  year = {2019},
  note = {R package version 1.40.0},
  url = {http://msbi.ipb-halle.de/msbi/CAMERA/},
}
@Manual{R-knitr,
  title = {knitr: A General-Purpose Package for Dynamic Report Generation in R},
  author = {Yihui Xie},
  year = {2019},
  note = {R package version 1.24},
  url = {https://CRAN.R-project.org/package=knitr},
}
@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-MSnbase,
  title = {MSnbase: Base Functions and Classes for Mass Spectrometry and Proteomics},
  author = {Laurent Gatto and Johannes Rainer and Sebastian Gibb},
  year = {2019},
  note = {R package version 2.10.1},
  url = {https://github.com/lgatto/MSnbase},
}
@Manual{R-mzR,
  title = {mzR: parser for netCDF, mzXML, mzData and mzML and mzIdentML files
(mass spectrometry data)},
  author = {Bernd Fischer and Steffen Neumann and Laurent Gatto and Qiang Kou and Johannes Rainer},
  year = {2019},
  note = {R package version 2.18.0},
  url = {https://github.com/sneumann/mzR/},
}
@Manual{R-ProtGenerics,
  title = {ProtGenerics: S4 generic functions for Bioconductor proteomics infrastructure},
  author = {Laurent Gatto},
  year = {2019},
  note = {R package version 1.16.0},
  url = {https://github.com/lgatto/ProtGenerics},
}
@Manual{R-RColorBrewer,
  title = {RColorBrewer: ColorBrewer Palettes},
  author = {Erich Neuwirth},
  year = {2014},
  note = {R package version 1.1-2},
  url = {https://CRAN.R-project.org/package=RColorBrewer},
}
@Manual{R-Rcpp,
  title = {Rcpp: Seamless R and C++ Integration},
  author = {Dirk Eddelbuettel and Romain Francois and JJ Allaire and Kevin Ushey and Qiang Kou and Nathan Russell and Douglas Bates and John Chambers},
  year = {2019},
  note = {R package version 1.0.2},
  url = {https://CRAN.R-project.org/package=Rcpp},
}
@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 = {2019},
  note = {R package version 1.15},
  url = {https://CRAN.R-project.org/package=rmarkdown},
}
@Manual{R-S4Vectors,
  title = {S4Vectors: Foundation of vector-like and list-like containers in
Bioconductor},
  author = {H. Pagès and M. Lawrence and P. Aboyoun},
  year = {2019},
  note = {R package version 0.22.0},
}
@Manual{R-xcms,
  title = {xcms: LC/MS and GC/MS Data Analysis},
  author = {Steffen Neumann},
  year = {2019},
  note = {http://metlin.scripps.edu/download/ and
https://github.com/sneumann/xcms},
}