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1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 | @article{HilbertCurve_first,
author={David Hilbert},
title={{\"Uber stetige Abbildungen einer Linie auf ein Fl\"achenst\"uck}},
journal={Mathematische Annalen},
volume={38},
year={1891},
pages={459},
}
@article{PeanoCurve_first,
author={Giuseppe Peano},
title={Sur une courbe qui remplit toute une aire plaine},
journal={Mathematische Annalen},
volume={36},
year={1890},
pages={157},
}
@article{HilbertVisualization_first,
title={Pixel-Oriented Visualization Techniques for Exploring Very
Large Data Bases},
Author={Daniel A. Keim},
journal={J. Comp. Graph. Stat.},
Volume={5},
year={1996},
pages={58-77},
url={http://www.jstor.org/stable/1390753},
}
@article{HistMeth_ChipSeq,
author={Artem Barski and Suresh Cuddapah and Kairong Cui and Tae-Young Roh and Dustin E.
Schones and Zhibin Wang and Gang Wei and Iouri Chepelev and Keji Zhao},
title={High-Resolution Profiling of Histone Methylations in the Human Genome},
journal={Cell},
Volume={129},
year={2007},
Pages={823-837},
doi={10.1016/j.cell.2007.05.009}
}
@misc{Maq,
author={Heng Li},
title={Maq: Mapping with Alignment qualities},
url={http://maq.sourceforg.net},
}
@manual{R,
title = {R: A Language and Environment for Statistical
Computing},
author = {{R Development Core Team}},
organization = {R Foundation for Statistical Computing},
address = {Vienna, Austria},
year = 2008,
note = {{ISBN} 3-900051-07-0},
url = {http://www.R-project.org}
}
@Article{BioC,
author = {Robert C Gentleman and Vincent
J. Carey and Douglas M. Bates and
Ben Bolstad and Marcel
Dettling and Sandrine Dudoit and Byron Ellis and
Laurent Gautier
and Yongchao Ge and Jeff Gentry and Kurt Hornik and
Torsten
Hothorn and Wolfgang Huber and Stefano Iacus and Rafael
Irizarry
and Friedrich Leisch and Cheng Li and Martin Maechler and Anthony J. Rossini
and Gunther Sawitzki and Colin Smith and Gordon Smyth and Luke Tierney
and Jean Y. H. Yang and Jianhua Zhang},
title = {Bioconductor: Open software development for
computational biology and bioinformatics},
journal = {Genome Biology},
volume = {5},
year = {2004},
pages = {R80},
url = {http://genomebiology.com/2004/5/10/R80}
}
@misc{gtkmm,
title={gtkmm: {C++} Interfaces for {GTK+} and {Gnome}},
author={Murray Cumming and Daniel Elstner and others},
url={http://www.gtkmm.org/}
}
@Manual{GenomeGraphs,
title = {GenomeGraphs: Plotting genomic information from Ensembl},
author = {Steffen Durinck and James Bullard},
year = {},
note = {R package version 0.0.9},
url={http://www.bioconductor.org/packages/bioc/html/GenomeGraphs.html}
}
@Manual{ShortRead,
title = {ShortRead: Base classes and methods for high-throughput short-read sequencing data.},
author = {Martin Morgan},
year = {},
note = {R package version 0.1.23},
}
@misc{HilbertVisBioinf,
title = {Visualisation of Genomic Data with Space-filling Curves},
author = {Simon Anders},
year = {2008},
howpublished = {Submitted}
}
@misc{ShortRead_and_HilbertCurveDisplay,
title = {Processing and Visualisation of High-Throughput Sequencing
with {ShortRead} and {HilbertVis}},
author={Simon Anders},
year = {2008},
howpublished = {Vignette, to be distributed with Bioconductor package ``ShortRead''}
}
@article{ UCSC_genome_browser,
author = {Kent, W.J. and Sugnet, C. W. and Furey, T. S. and Roskin, K.M. and Pringle, T. H.
and Zahler, A. M. and Haussler, D.},
title = {The Human Genome Browser at {UCSC}},
journal = {Genome Res.},
volume = {12},
pages={996-1006},
year=2002},
}
@misc{GFF_Spec,
title={{GFF} ({General Feature Format}) Specifications Document},
author={Richard Durbin and David Haussler and others},
howpublished={\url{http://www.sanger.ac.uk/Software/formats/GFF/GFF_Spec.shtml}},
year={2000},
}
@misc{Wiggle_Spec,
title={Wiggle Track Format ({WIG})},
key={Wig},
howpublished={\url{http://genome.ucsc.edu/goldenPath/help/wiggle.html}},
}
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