@article{multihiccompare,
	author = {Stansfield, John C and Cresswell, Kellen G and Dozmorov, Mikhail G},
	title = "{multiHiCcompare: joint normalization and comparative analysis of complex Hi-C experiments}",
	journal = {Bioinformatics},
	volume = {35},
	pages = {2916-2923},
	year = {2019},
	url = {https://doi.org/10.1093/bioinformatics/btz048}
}

@article{kr,
	author = {Knight, Philip A. and Ruiz, Daniel},
	title = "{A fast algorithm for matrix balancing}",
	journal = {IMA Journal of Numerical Analysis},
	volume = {33},
	pages = {1029-1047},
	year = {2012},
	url = {https://doi.org/10.1093/imanum/drs019}
}

@inproceedings{kmeans,
	author = {Wagstaff, Kiri and Cardie, Claire and Rogers, Seth and Schr\"{o}dl, Stefan},
	title = {Constrained K-Means Clustering with Background Knowledge},
	year = {2001},
	booktitle = {Proceedings of the Eighteenth International Conference on Machine Learning},
	pages = {577–584},
	series = {ICML '01},
	url = {https://pdfs.semanticscholar.org/0bac/ca0993a3f51649a6bb8dbb093fc8d8481ad4.pdf}
}

@article{juicer,
	author = {Durand, Neva C. AND Shamim, Muhammad S. AND Machol, Ido AND Rao, Suhas S.P. AND Huntley, Miriam H. AND Lander, Eric S. AND Aiden, Erez Lieberman},
	title = "{Juicer Provides a One-Click System for Analyzing Loop-Resolution Hi-C Experiments}",
	journal = {Cell Systems},
	volume = {3},
	pages = {95-98},
	year = {2016},
	url = {https://doi.org/10.1016/j.cels.2016.07.002}
}

@article{cooler,
	author = {Abdennur, Nezar and Mirny, Leonid A},
	title = "{Cooler: scalable storage for Hi-C data and other genomically labeled arrays}",
	journal = {Bioinformatics},
	volume = {36},
	pages = {311-316},
	year = {2019},
	url = {https://doi.org/10.1093/bioinformatics/btz540}
}

@article{hicpro,
	author = {Servant, Nicolas AND Varoquaux, Nelle AND Lajoie, Bryan R. AND Viara, Eric AND Chen, Chong-Jian AND Vert, Jean-Philippe AND Heard, Edith AND Dekker, Job AND Barillot, Emmanuel},
	title = "{HiC-Pro: an optimized and flexible pipeline for Hi-C data processing}",
	journal = {Genome Biology},
	volume = {16},
	pages = {259},
	year = {2015},
	url = {https://doi.org/10.1186/s13059-015-0831-x}
}
