references.bib

@Manual{Rlang,
    title = {R: A Language and Environment for Statistical Computing},
    author = {{R Core Team}},
    organization = {R Foundation for Statistical Computing},
    address = {Vienna, Austria},
    year = {2023},
    url = {https://www.R-project.org/},
  }

@Article{Rsubread,
    title = {The {R} package {Rsubread} is easier, faster, cheaper and better for alignment and quantification of {RNA} sequencing reads},
    author = {Yang Liao and Gordon K. Smyth and Wei Shi},
    journal = {Nucleic Acids Research},
    year = {2019},
    volume = {47},
    issue = {8},
    pages = {e47},
    doi = {10.1093/nar/gkz114},
  }

@article{luo2020new,
  title={New developments on the Encyclopedia of DNA Elements (ENCODE) data portal},
  author={Luo, Yunhai and Hitz, Benjamin C and Gabdank, Idan and Hilton, Jason A and Kagda, Meenakshi S and Lam, Bonita and Myers, Zachary and Sud, Paul and Jou, Jennifer and Lin, Khine and others},
  journal={Nucleic acids research},
  volume={48},
  number={D1},
  pages={D882--D889},
  year={2020},
  publisher={Oxford University Press}
}

@Article{Rqc,
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}

@Article{QuasR,
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	author = {Dimos Gaidatzis and Anita Lerch and Florian Hahne and Michael B Stadler},
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}

@Article{,
	title = {The {R} package {Rsubread} is easier, faster, cheaper and better for alignment and quantification of {RNA} sequencing reads},
	author = {Yang Liao and Gordon K. Smyth and Wei Shi},
	journal = {Nucleic Acids Research},
	year = {2019},
	volume = {47},
	issue = {8},
	pages = {e47},
	doi = {10.1093/nar/gkz114},
}

@Book{ggplot2,
	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},
}

@Manual{tidyr,
	title = {tidyr: Tidy Messy Data},
	author = {Hadley Wickham and Davis Vaughan and Maximilian Girlich},
	year = {2023},
	note = {R package version 1.3.0},
	url = {https://CRAN.R-project.org/package=tidyr},
}

@misc{Gatto_Loriot, 
	title = {WSBIM2122: Omics data analysis},
	url={https://github.com/UCLouvain-CBIO/WSBIM2122},
	publisher={UCLouvain-CBIO},
	year = {2023},
	author={Gatto, Laurent and Loriot, Axelle}} 
	
@Article{DESeq2,
	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},
}