packages.bib

@Manual{R-AnnotationDbi,
  title = {AnnotationDbi: Manipulation of SQLite-based annotations in Bioconductor},
  author = {Hervé Pagès and Marc Carlson and Seth Falcon and Nianhua Li},
  year = {2024},
  note = {R package version 1.68.0},
  url = {https://bioconductor.org/packages/AnnotationDbi},
  doi = {10.18129/B9.bioc.AnnotationDbi},
}

@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 = {2024},
  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 = {2024},
  note = {R package version 2.66.0},
  url = {https://bioconductor.org/packages/Biobase},
  doi = {10.18129/B9.bioc.Biobase},
}

@Manual{R-BiocGenerics,
  title = {BiocGenerics: S4 generic functions used in Bioconductor},
  author = {The Bioconductor Dev Team},
  year = {2024},
  note = {R package version 0.52.0},
  url = {https://bioconductor.org/packages/BiocGenerics},
  doi = {10.18129/B9.bioc.BiocGenerics},
}

@Manual{R-BiocParallel,
  title = {BiocParallel: Bioconductor facilities for parallel evaluation},
  author = {Martin Morgan and Jiefei Wang and Valerie Obenchain and Michel Lang and Ryan Thompson and Nitesh Turaga},
  year = {2024},
  note = {R package version 1.40.0},
  url = {https://bioconductor.org/packages/BiocParallel},
  doi = {10.18129/B9.bioc.BiocParallel},
}

@Manual{R-bookdown,
  title = {bookdown: Authoring Books and Technical Documents with R Markdown},
  author = {Yihui Xie},
  note = {R package version 0.34.2},
  url = {https://github.com/rstudio/bookdown},
  year = {2024},
}

@Manual{R-clusterProfiler,
  title = {clusterProfiler: A universal enrichment tool for interpreting omics data},
  author = {Guangchuang Yu},
  year = {2024},
  note = {R package version 4.14.1},
  url = {https://bioconductor.org/packages/clusterProfiler},
  doi = {10.18129/B9.bioc.clusterProfiler},
}

@Manual{R-DESeq2,
  title = {DESeq2: Differential gene expression analysis based on the negative
binomial distribution},
  author = {Michael Love and Simon Anders and Wolfgang Huber},
  year = {2024},
  note = {R package version 1.46.0},
  url = {https://bioconductor.org/packages/DESeq2},
  doi = {10.18129/B9.bioc.DESeq2},
}

@Manual{R-dplyr,
  title = {dplyr: A Grammar of Data Manipulation},
  author = {Hadley Wickham and Romain François and Lionel Henry and Kirill Müller and Davis Vaughan},
  year = {2023},
  note = {R package version 1.1.4},
  url = {https://dplyr.tidyverse.org},
}

@Manual{R-DT,
  title = {DT: A Wrapper of the JavaScript Library DataTables},
  author = {Yihui Xie and Joe Cheng and Xianying Tan},
  year = {2024},
  note = {R package version 0.33},
  url = {https://github.com/rstudio/DT},
}

@Manual{R-factoextra,
  title = {factoextra: Extract and Visualize the Results of Multivariate Data Analyses},
  author = {Alboukadel Kassambara and Fabian Mundt},
  year = {2020},
  note = {R package version 1.0.7},
  url = {http://www.sthda.com/english/rpkgs/factoextra},
}

@Manual{R-forcats,
  title = {forcats: Tools for Working with Categorical Variables (Factors)},
  author = {Hadley Wickham},
  year = {2023},
  note = {R package version 1.0.0},
  url = {https://forcats.tidyverse.org/},
}

@Manual{R-GenomeInfoDb,
  title = {GenomeInfoDb: Utilities for manipulating chromosome names, including modifying
them to follow a particular naming style},
  author = {Sonali Arora and Martin Morgan and Marc Carlson and Hervé Pagès},
  year = {2024},
  note = {R package version 1.42.0},
  url = {https://bioconductor.org/packages/GenomeInfoDb},
  doi = {10.18129/B9.bioc.GenomeInfoDb},
}

@Manual{R-GenomicRanges,
  title = {GenomicRanges: Representation and manipulation of genomic intervals},
  author = {Patrick Aboyoun and Hervé Pagès and Michael Lawrence},
  year = {2024},
  note = {R package version 1.58.0},
  url = {https://bioconductor.org/packages/GenomicRanges},
  doi = {10.18129/B9.bioc.GenomicRanges},
}

@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 and Dewey Dunnington and Teun {van den Brand}},
  year = {2024},
  note = {R package version 3.5.1},
  url = {https://ggplot2.tidyverse.org},
}

@Manual{R-GO.db,
  title = {GO.db: A set of annotation maps describing the entire Gene Ontology},
  author = {Marc Carlson},
  year = {2024},
  note = {R package version 3.20.0},
}

@Manual{R-gplots,
  title = {gplots: Various R Programming Tools for Plotting Data},
  author = {Gregory R. Warnes and Ben Bolker and Lodewijk Bonebakker and Robert Gentleman and Wolfgang Huber and Andy Liaw and Thomas Lumley and Martin Maechler and Arni Magnusson and Steffen Moeller and Marc Schwartz and Bill Venables and Tal Galili},
  year = {2024},
  note = {R package version 3.2.0},
  url = {https://github.com/talgalili/gplots},
}

@Manual{R-IRanges,
  title = {IRanges: Foundation of integer range manipulation in Bioconductor},
  author = {Hervé Pagès and Patrick Aboyoun and Michael Lawrence},
  year = {2024},
  note = {R package version 2.40.0},
  url = {https://bioconductor.org/packages/IRanges},
  doi = {10.18129/B9.bioc.IRanges},
}

@Manual{R-knitr,
  title = {knitr: A General-Purpose Package for Dynamic Report Generation in R},
  author = {Yihui Xie},
  year = {2024},
  note = {R package version 1.49},
  url = {https://yihui.org/knitr/},
}

@Manual{R-limma,
  title = {limma: Linear Models for Microarray and Omics Data},
  author = {Gordon Smyth and Yifang Hu and Matthew Ritchie and Jeremy Silver and James Wettenhall and Davis McCarthy and Di Wu and Wei Shi and Belinda Phipson and Aaron Lun and Natalie Thorne and Alicia Oshlack and Carolyn {de Graaf} and Yunshun Chen and Goknur Giner and Mette Langaas and Egil Ferkingstad and Marcus Davy and Francois Pepin and Dongseok Choi and Charity Law and Mengbo Li and Lizhong Chen},
  year = {2024},
  note = {R package version 3.62.1},
  url = {https://bioconductor.org/packages/limma},
  doi = {10.18129/B9.bioc.limma},
}

@Manual{R-lubridate,
  title = {lubridate: Make Dealing with Dates a Little Easier},
  author = {Vitalie Spinu and Garrett Grolemund and Hadley Wickham},
  year = {2023},
  note = {R package version 1.9.3},
  url = {https://lubridate.tidyverse.org},
}

@Manual{R-magrittr,
  title = {magrittr: A Forward-Pipe Operator for R},
  author = {Stefan Milton Bache and Hadley Wickham},
  year = {2022},
  note = {R package version 2.0.3},
  url = {https://magrittr.tidyverse.org},
}

@Manual{R-MatrixGenerics,
  title = {MatrixGenerics: S4 Generic Summary Statistic Functions that Operate on
Matrix-Like Objects},
  author = {Constantin Ahlmann-Eltze and Peter Hickey and Hervé Pagès},
  year = {2024},
  note = {R package version 1.18.0},
  url = {https://bioconductor.org/packages/MatrixGenerics},
  doi = {10.18129/B9.bioc.MatrixGenerics},
}

@Manual{R-matrixStats,
  title = {matrixStats: Functions that Apply to Rows and Columns of Matrices (and to
Vectors)},
  author = {Henrik Bengtsson},
  year = {2024},
  note = {R package version 1.4.1},
  url = {https://github.com/HenrikBengtsson/matrixStats},
}

@Manual{R-msigdbr,
  title = {msigdbr: MSigDB Gene Sets for Multiple Organisms in a Tidy Data Format},
  author = {Igor Dolgalev},
  year = {2022},
  note = {R package version 7.5.1},
  url = {https://igordot.github.io/msigdbr/},
}

@Manual{R-msmbstyle,
  title = {msmbstyle: MSMB Styles for R Markdown Documents},
  author = {Mike Smith},
  year = {2024},
  note = {R package version 0.0.22, commit b3d4ad8eaf46eb111d711cc600f9e258dd7a6807},
  url = {https://github.com/lgatto/msmbstyle},
}

@Manual{R-MultiAssayExperiment,
  title = {MultiAssayExperiment: Software for the integration of multi-omics experiments in
Bioconductor},
  author = {Marcel Ramos and Martin Morgan and Vincent J Carey and Levi Waldron},
  year = {2024},
  note = {R package version 1.32.0},
  url = {https://bioconductor.org/packages/MultiAssayExperiment},
  doi = {10.18129/B9.bioc.MultiAssayExperiment},
}

@Manual{R-org.Hs.eg.db,
  title = {org.Hs.eg.db: Genome wide annotation for Human},
  author = {Marc Carlson},
  year = {2024},
  note = {R package version 3.20.0},
}

@Manual{R-patchwork,
  title = {patchwork: The Composer of Plots},
  author = {Thomas Lin Pedersen},
  year = {2024},
  note = {R package version 1.3.0},
  url = {https://patchwork.data-imaginist.com},
}

@Manual{R-plotly,
  title = {plotly: Create Interactive Web Graphics via plotly.js},
  author = {Carson Sievert and Chris Parmer and Toby Hocking and Scott Chamberlain and Karthik Ram and Marianne Corvellec and Pedro Despouy},
  year = {2024},
  note = {R package version 4.10.4},
  url = {https://plotly-r.com},
}

@Manual{R-PSMatch,
  title = {PSMatch: Handling and Managing Peptide Spectrum Matches},
  author = {Laurent Gatto and Johannes Rainer and Sebastian Gibb},
  year = {2024},
  note = {R package version 1.10.0},
  url = {https://bioconductor.org/packages/PSMatch},
  doi = {10.18129/B9.bioc.PSMatch},
}

@Manual{R-purrr,
  title = {purrr: Functional Programming Tools},
  author = {Hadley Wickham and Lionel Henry},
  year = {2023},
  note = {R package version 1.0.2},
  url = {https://purrr.tidyverse.org/},
}

@Manual{R-QFeatures,
  title = {QFeatures: Quantitative features for mass spectrometry data},
  author = {Laurent Gatto and Christophe Vanderaa},
  year = {2024},
  note = {R package version 1.16.0},
  url = {https://bioconductor.org/packages/QFeatures},
  doi = {10.18129/B9.bioc.QFeatures},
}

@Manual{R-readr,
  title = {readr: Read Rectangular Text Data},
  author = {Hadley Wickham and Jim Hester and Jennifer Bryan},
  year = {2024},
  note = {R package version 2.1.5},
  url = {https://readr.tidyverse.org},
}

@Manual{R-rmarkdown,
  title = {rmarkdown: Dynamic Documents for R},
  author = {JJ Allaire and Yihui Xie and Christophe Dervieux 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 = {2024},
  note = {R package version 2.29},
  url = {https://github.com/rstudio/rmarkdown},
}

@Manual{R-rWSBIM2122,
  title = {rWSBIM2122: Companion Package for WSBIM2122 Course},
  author = {Laurent Gatto},
  year = {2024},
  note = {R package version 0.4.1, commit 0bf852ac8f166a31081512e2c8ea5d319fd6509a},
  url = {https://github.com/UCLouvain-CBIO/rWSBIM2122},
}

@Manual{R-S4Vectors,
  title = {S4Vectors: Foundation of vector-like and list-like containers in
Bioconductor},
  author = {Hervé Pagès and Michael Lawrence and Patrick Aboyoun},
  year = {2024},
  note = {R package version 0.44.0},
  url = {https://bioconductor.org/packages/S4Vectors},
  doi = {10.18129/B9.bioc.S4Vectors},
}

@Manual{R-Spectra,
  title = {Spectra: Spectra Infrastructure for Mass Spectrometry Data},
  author = {Laurent Gatto and Johannes Rainer and Sebastian Gibb and Philippine Louail},
  year = {2024},
  note = {R package version 1.16.0},
  url = {https://bioconductor.org/packages/Spectra},
  doi = {10.18129/B9.bioc.Spectra},
}

@Manual{R-stringr,
  title = {stringr: Simple, Consistent Wrappers for Common String Operations},
  author = {Hadley Wickham},
  year = {2023},
  note = {R package version 1.5.1},
  url = {https://stringr.tidyverse.org},
}

@Manual{R-SummarizedExperiment,
  title = {SummarizedExperiment: A container (S4 class) for matrix-like assays},
  author = {Martin Morgan and Valerie Obenchain and Jim Hester and Hervé Pagès},
  year = {2024},
  note = {R package version 1.36.0},
  url = {https://bioconductor.org/packages/SummarizedExperiment},
  doi = {10.18129/B9.bioc.SummarizedExperiment},
}

@Manual{R-tibble,
  title = {tibble: Simple Data Frames},
  author = {Kirill Müller and Hadley Wickham},
  year = {2023},
  note = {R package version 3.2.1},
  url = {https://tibble.tidyverse.org/},
}

@Manual{R-tidyr,
  title = {tidyr: Tidy Messy Data},
  author = {Hadley Wickham and Davis Vaughan and Maximilian Girlich},
  year = {2024},
  note = {R package version 1.3.1},
  url = {https://tidyr.tidyverse.org},
}

@Manual{R-tidyverse,
  title = {tidyverse: Easily Install and Load the Tidyverse},
  author = {Hadley Wickham},
  year = {2023},
  note = {R package version 2.0.0},
  url = {https://tidyverse.tidyverse.org},
}

@Article{Biobase2015,
  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 = {http://www.nature.com/nmeth/journal/v12/n2/full/nmeth.3252.html},
}

@Article{BiocGenerics2015,
  author = {{Huber} and {W.} and {Carey} and V. J. and {Gentleman} and {R.} and {Anders} and {S.} and {Carlson} and {M.} and {Carvalho} and B. S. and {Bravo} and H. C. and {Davis} and {S.} and {Gatto} and {L.} and {Girke} and {T.} and {Gottardo} and {R.} and {Hahne} and {F.} and {Hansen} and K. D. and {Irizarry} and R. A. and {Lawrence} and {M.} and {Love} and M. I. and {MacDonald} and {J.} and {Obenchain} and {V.} and {{Ole's}} and A. K. and {{Pag`es}} and {H.} and {Reyes} and {A.} and {Shannon} and {P.} and {Smyth} and G. K. and {Tenenbaum} and {D.} and {Waldron} and {L.} and {Morgan} and {M.}},
  title = {{O}rchestrating high-throughput genomic analysis with {B}ioconductor},
  journal = {Nature Methods},
  year = {2015},
  volume = {12},
  number = {2},
  pages = {115--121},
  url = {http://www.nature.com/nmeth/journal/v12/n2/full/nmeth.3252.html},
}

@Book{bookdown2016,
  title = {bookdown: Authoring Books and Technical Documents with {R} Markdown},
  author = {Yihui Xie},
  publisher = {Chapman and Hall/CRC},
  address = {Boca Raton, Florida},
  year = {2016},
  isbn = {978-1138700109},
  url = {https://bookdown.org/yihui/bookdown},
}

@Article{clusterProfiler2024,
  title = {Using clusterProfiler to characterize multiomics data},
  author = {Shuangbin Xu and Erqiang Hu and Yantong Cai and Zijing Xie and Xiao Luo and Li Zhan and Wenli Tang and Qianwen Wang and Bingdong Liu and Rui Wang and Wenqin Xie and Tianzhi Wu and Liwei Xie and Guangchuang Yu},
  issn = {1750-2799},
  url = {https://www.nature.com/articles/s41596-024-01020-z},
  doi = {10.1038/s41596-024-01020-z},
  journal = {Nature Protocols},
  month = {Jul},
  year = {2024},
}

@Article{clusterProfiler2021,
  title = {clusterProfiler 4.0: A universal enrichment tool for interpreting omics data},
  author = {Tianzhi Wu and Erqiang Hu and Shuangbin Xu and Meijun Chen and Pingfan Guo and Zehan Dai and Tingze Feng and Lang Zhou and Wenli Tang and Li Zhan and xiaochong Fu and Shanshan Liu and Xiaochen Bo and Guangchuang Yu},
  journal = {The Innovation},
  year = {2021},
  volume = {2},
  number = {3},
  pages = {100141},
  doi = {10.1016/j.xinn.2021.100141},
}

@Article{clusterProfiler2012,
  title = {clusterProfiler: an R package for comparing biological themes among gene clusters},
  author = {Guangchuang Yu and Li-Gen Wang and Yanyan Han and Qing-Yu He},
  journal = {OMICS: A Journal of Integrative Biology},
  year = {2012},
  volume = {16},
  number = {5},
  pages = {284-287},
  pmid = {22455463},
  doi = {10.1089/omi.2011.0118},
}

@Article{DESeq22014,
  title = {Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2},
  author = {Michael I. Love and Wolfgang Huber and Simon Anders},
  year = {2014},
  journal = {Genome Biology},
  doi = {10.1186/s13059-014-0550-8},
  volume = {15},
  issue = {12},
  pages = {550},
}

@Article{GenomicRanges2013,
  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},
  url = {http://www.ploscompbiol.org/article/info%3Adoi%2F10.1371%2Fjournal.pcbi.1003118},
}

@Book{ggplot22016,
  author = {Hadley Wickham},
  title = {ggplot2: Elegant Graphics for Data Analysis},
  publisher = {Springer-Verlag New York},
  year = {2016},
  isbn = {978-3-319-24277-4},
  url = {https://ggplot2.tidyverse.org},
}

@Article{IRanges2013,
  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},
  url = {http://www.ploscompbiol.org/article/info%3Adoi%2F10.1371%2Fjournal.pcbi.1003118},
}

@Book{knitr2015,
  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 = {https://yihui.org/knitr/},
}

@InCollection{knitr2014,
  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},
}

@Article{limma2015,
  author = {Matthew E Ritchie and Belinda Phipson and Di Wu and Yifang Hu and Charity W Law and Wei Shi and Gordon K Smyth},
  title = {{limma} powers differential expression analyses for {RNA}-sequencing and microarray studies},
  journal = {Nucleic Acids Research},
  year = {2015},
  volume = {43},
  number = {7},
  pages = {e47},
  doi = {10.1093/nar/gkv007},
}

@Article{lubridate2011,
  title = {Dates and Times Made Easy with {lubridate}},
  author = {Garrett Grolemund and Hadley Wickham},
  journal = {Journal of Statistical Software},
  year = {2011},
  volume = {40},
  number = {3},
  pages = {1--25},
  url = {https://www.jstatsoft.org/v40/i03/},
}

@Article{MultiAssayExperiment2017,
  title = {Software For The Integration Of Multi-Omics Experiments In Bioconductor},
  author = {Marcel Ramos and Lucas Schiffer and Angela Re and Rimsha Azhar and Azfar Basunia and Carmen {Rodriguez Cabrera} and Tiffany Chan and Philip Chapman and Sean Davis and David Gomez-Cabrero and Aedin C. Culhane and Benjamin Haibe-Kains and Kasper Hansen and Hanish Kodali and Marie S Louis and Arvind S Mer and Markus Reister and Martin Morgan and Vincent J Carey and Levi Waldron},
  journal = {Cancer Research},
  year = {2017},
  volume = {77},
  number = {21},
  pages = {e39-42},
  doi = {10.1158/0008-5472.CAN-17-0344},
  url = {https://cancerres.aacrjournals.org/content/77/21/e39},
}

@Book{plotly2020,
  author = {Carson Sievert},
  title = {Interactive Web-Based Data Visualization with R, plotly, and shiny},
  publisher = {Chapman and Hall/CRC},
  year = {2020},
  isbn = {9781138331457},
  url = {https://plotly-r.com},
}

@Book{rmarkdown2018,
  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},
  isbn = {9781138359338},
  url = {https://bookdown.org/yihui/rmarkdown},
}

@Book{rmarkdown2020,
  title = {R Markdown Cookbook},
  author = {Yihui Xie and Christophe Dervieux and Emily Riederer},
  publisher = {Chapman and Hall/CRC},
  address = {Boca Raton, Florida},
  year = {2020},
  isbn = {9780367563837},
  url = {https://bookdown.org/yihui/rmarkdown-cookbook},
}

@Article{Spectra2022,
  title = {A Modular and Expandable Ecosystem for Metabolomics Data Annotation in R},
  author = {Johannes Rainer and Andrea Vicini and Liesa Salzer and Jan Stanstrup and Josep M. Badia and Steffen Neumann and Michael A. Stravs and Vinicius {Verri Hernandes} and Laurent Gatto and Sebastian Gibb and Michael Witting},
  journal = {Metabolites},
  year = {2022},
  doi = {10.3390/metabo12020173},
  url = {https://www.mdpi.com/2218-1989/12/2/173},
  volume = {12},
  pages = {173},
}

@Article{tidyverse2019,
  title = {Welcome to the {tidyverse}},
  author = {Hadley Wickham and Mara Averick and Jennifer Bryan and Winston Chang and Lucy D'Agostino McGowan and Romain François and Garrett Grolemund and Alex Hayes and Lionel Henry and Jim Hester and Max Kuhn and Thomas Lin Pedersen and Evan Miller and Stephan Milton Bache and Kirill Müller and Jeroen Ooms and David Robinson and Dana Paige Seidel and Vitalie Spinu and Kohske Takahashi and Davis Vaughan and Claus Wilke and Kara Woo and Hiroaki Yutani},
  year = {2019},
  journal = {Journal of Open Source Software},
  volume = {4},
  number = {43},
  pages = {1686},
  doi = {10.21105/joss.01686},
}