@article{van2008visualizing,
    title={Visualizing data using t-{S}{N}{E}},
    author={Van der Maaten, L. and Hinton, G.},
    journal={J. Mach. Learn. Res.},
    volume={9},
    number={2579-2605},
    pages={85},
    year={2008}
}

@Article{ganz2016rintrojs,
    title = {{rintrojs}: A Wrapper for the Intro.js Library},
    author = {Ganz, C.},
    journal = {Journal of Open Source Software},
    publisher = {The Open Journal},
    year = {2016},
    volume = {1},
    issue = {6},
    month = {October},
    url = {http://dx.doi.org/10.21105/joss.00063},
}

@ARTICLE{bodenmiller2012cytof,
  title       = "Multiplexed mass cytometry profiling of cellular states
                 perturbed by small-molecule regulators",
  author      = "Bodenmiller, Bernd and Zunder, Eli R and Finck, Rachel and
                 Chen, Tiffany J and Savig, Erica S and Bruggner, Robert V and
                 Simonds, Erin F and Bendall, Sean C and Sachs, Karen and
                 Krutzik, Peter O and Nolan, Garry P",
  journal     = "Nat. Biotechnol.",
  volume      =  30,
  number      =  9,
  pages       = "858--867",
  year        =  2012
}

@ARTICLE{nowicka2017workflow,
  title       = "{CyTOF} workflow: differential discovery in high-throughput
                 high-dimensional cytometry datasets",
  author      = "Nowicka, Malgorzata and Krieg, Carsten and Weber, Lukas M and
                 Hartmann, Felix J and Guglietta, Silvia and Becher, Burkhard
                 and Levesque, Mitchell P and Robinson, Mark D",
  journal     = "F1000Res.",
  volume      =  6,
  pages       = "748",
  year        =  2017
}

@ARTICLE{vangassen2015flowsom,
  title       = "{FlowSOM}: Using self-organizing maps for visualization and
                 interpretation of cytometry data",
  author      = "Van Gassen, Sofie and Callebaut, Britt and Van Helden, Mary J
                 and Lambrecht, Bart N and Demeester, Piet and Dhaene, Tom and
                 Saeys, Yvan",
  journal     = "Cytometry A",
  volume      =  87,
  number      =  7,
  pages       = "636--645",
  year        =  2015
}

@Article{tasic2016adult,
    Author="Tasic, B.  and Menon, V.  and Nguyen, T. N.  and Kim, T. K.  and Jarsky, T.  and Yao, Z.  and Levi, B.  and Gray, L. T.  and Sorensen, S. A.  and Dolbeare, T.  and Bertagnolli, D.  and Goldy, J.  and Shapovalova, N.  and Parry, S.  and Lee, C.  and Smith, K.  and Bernard, A.  and Madisen, L.  and Sunkin, S. M.  and Hawrylycz, M.  and Koch, C.  and Zeng, H. ",
    Title="{{A}dult mouse cortical cell taxonomy revealed by single cell transcriptomics}",
    Journal="Nat. Neurosci.",
    Year="2016",
    Volume="19",
    Number="2",
    Pages="335--346",
    Month="Feb"
}

@article{kra2018iSEE,
    title = "iSEE: Interactive SummarizedExperiment Explorer",
    author = "Rue-Albrecht, K. and Marini, F. and Soneson, C. and Lun, A. T. L.",
    journal = "F1000Research",
    year = "2018",
    month = "Jun",
    volume = "7",
    pages = "741"
}

@Article{mccarthy2017scater,
    Author="McCarthy, D. J.  and Campbell, K. R.  and Lun, A. T.  and Wills, Q. F. ",
    Title="{{S}cater: pre-processing, quality control, normalization and visualization of single-cell {R}{N}{A}-seq data in {R}}",
    Journal="Bioinformatics",
    Year="2017",
    Volume="33",
    Number="8",
    Pages="1179--1186",
    Month="04"
}


