
@article{jain_oxford_2016,
	title = {The {Oxford} {Nanopore} {MinION}: delivery of nanopore sequencing to the genomics community},
	volume = {17},
	issn = {1474-760X},
	shorttitle = {{MinION}},
	url = {https://doi.org/10.1186/s13059-016-1103-0},
	doi = {10.1186/s13059-016-1103-0},
	number = {1},
	urldate = {2019-01-18},
	journal = {Genome Biology},
	author = {Jain, Miten and Olsen, Hugh E. and Paten, Benedict and Akeson, Mark},
	month = nov,
	year = {2016},
	pages = {239}
}

@article{deamer_three_2016,
	title = {Three decades of nanopore sequencing},
	volume = {34},
	copyright = {2016 Nature Publishing Group},
	issn = {1546-1696},
	url = {https://www.nature.com/articles/nbt.3423},
	doi = {10.1038/nbt.3423},
	language = {en},
	number = {5},
	urldate = {2019-01-18},
	journal = {Nature Biotechnology},
	author = {Deamer, David and Akeson, Mark and Branton, Daniel},
	month = may,
	year = {2016},
	pages = {518--524}
}

@techreport{ryan_wick_comparison_2018,
	title = {Comparison of {Oxford} {Nanopore} basecalling tools},
	url = {https://zenodo.org/record/1188469},
	language = {eng},
	urldate = {2019-01-18},
	institution = {Zenodo},
	author = {Ryan Wick and Louise M Judd and Kathryn E Holt},
	month = mar,
	year = {2018},
	doi = {10.5281/zenodo.1188469}
}

@article{lanfear_minionqc_2018,
	title = {{MinIONQC} fast and simple quality control for {MinION} sequencing data},
	shorttitle = {{MinIONQC}},
	url = {https://academic.oup.com/bioinformatics/advance-article/doi/10.1093/bioinformatics/bty654/5057155},
	doi = {10.1093/bioinformatics/bty654},
	language = {en},
	urldate = {2019-01-18},
	journal = {Bioinformatics},
	author = {Lanfear, R. and Schalamun, M. and Kainer, D. and Wang, W. and Schwessinger, B.},
	year = {2018}
}

@article{de_coster_nanopack_2018,
	title = {{NanoPack} visualizing and processing long-read sequencing data},
	volume = {34},
	issn = {1367-4803},
	shorttitle = {{NanoPack}},
	url = {https://academic.oup.com/bioinformatics/article/34/15/2666/4934939},
	doi = {10.1093/bioinformatics/bty149},
	language = {en},
	number = {15},
	urldate = {2019-01-18},
	journal = {Bioinformatics},
	author = {De Coster, Wouter and D’Hert, Svenn and Schultz, Darrin T. and Cruts, Marc and Van Broeckhoven, Christine},
	month = aug,
	year = {2018},
	pages = {2666--2669}
}

@misc{berengere_laffay_toulligqc_2018,
	title = {{toulligQC}, a post sequencing {QC} tool for {Oxford} {Nanopore} sequencers},
	shorttitle = {{toulligQC}},
	url = {https://github.com/GenomicParisCentre/toulligQC},
	urldate = {2019-01-18},
	publisher = {GenomicParisCentre},
	author = {Laffay, Bérengère and Ferrato-Berberian, Lionel and Jourdren, Laurent and Lemoine, Sophie and Le Crom, Stéphane},
	month = oct,
	year = {2018},
	note = {original-date: 2017-05-15T14:41:53Z}
}

@misc{jupyter_project_and_community_jupyter_2019,
	title = {The {Jupyter} {Notebook}},
	url = {https://jupyter-notebook.readthedocs.io/en/stable/},
	urldate = {2019-01-18},
	author = {{Jupyter Project}},
	month = jan,
	year = {2019}
}

@misc{oxford_nanopore_technologies_bioinformatics_2019,
	title = {A bioinformatics tutorial demonstrating a best-practice workflow to review a flowcell's sequence\_summary.txt  : nanoporetech/ont\_tutorial\_basicqc},
	copyright = {MPL-2.0},
	shorttitle = {A bioinformatics tutorial demonstrating a best-practice workflow to review a flowcell's sequence\_summary.txt},
	url = {https://github.com/nanoporetech/ont_tutorial_basicqc},
	urldate = {2019-01-25},
	publisher = {Oxford Nanopore Technologies},
	author = {{Oxford Nanopore Technologies}},
	month = jan,
	year = {2019},
	note = {original-date: 2019-01-16T15:48:21Z}
}

@misc{plotly_technologies_inc_plotly_2015,
	title = {Plotly, charting tool for online collaborative data science},
	url = {https://plot.ly},
	author = {{Plotly Technologies}},
	year = {2015}
}

@article{garalde_highly_2018,
	title = {Highly parallel direct {RNA} sequencing on an array of nanopores},
	volume = {15},
	copyright = {2018 Nature Publishing Group},
	issn = {1548-7105},
	url = {https://www.nature.com/articles/nmeth.4577},
	doi = {10.1038/nmeth.4577},
	language = {en},
	number = {3},
	urldate = {2019-01-25},
	journal = {Nature Methods},
	author = {Garalde, Daniel R. and Snell, Elizabeth A. and Jachimowicz, Daniel and Sipos, Botond and Lloyd, Joseph H. and Bruce, Mark and Pantic, Nadia and Admassu, Tigist and James, Phillip and Warland, Anthony and Jordan, Michael and Ciccone, Jonah and Serra, Sabrina and Keenan, Jemma and Martin, Samuel and McNeill, Luke and Wallace, E. Jayne and Jayasinghe, Lakmal and Wright, Chris and Blasco, Javier and Young, Stephen and Brocklebank, Denise and Juul, Sissel and Clarke, James and Heron, Andrew J. and Turner, Daniel J.},
	month = mar,
	year = {2018},
	pages = {201--206}
}
