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. 2018 May 1;34(9):1600-1602.
doi: 10.1093/bioinformatics/btx657.

heatmaply: an R package for creating interactive cluster heatmaps for online publishing

Tal Galili  1 , Alan O'Callaghan  2 , Jonathan Sidi  3 , Carson Sievert  4
Affiliations

heatmaply: an R package for creating interactive cluster heatmaps for online publishing

Tal Galili et al. Bioinformatics. .

Abstract

Summary: heatmaply is an R package for easily creating interactive cluster heatmaps that can be shared online as a stand-alone HTML file. Interactivity includes a tooltip display of values when hovering over cells, as well as the ability to zoom in to specific sections of the figure from the data matrix, the side dendrograms, or annotated labels. Thanks to the synergistic relationship between heatmaply and other R packages, the user is empowered by a refined control over the statistical and visual aspects of the heatmap layout.

Availability and implementation: The heatmaply package is available under the GPL-2 Open Source license. It comes with a detailed vignette, and is freely available from: http://cran.r-project.org/package=heatmaply.

Contact: tal.galili@math.tau.ac.il.

Supplementary information: Supplementary data are available at Bioinformatics online.

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Figures

Fig. 1
Fig. 1
The (square root) number of people infected by Measles in 50 states, from 1928 to 2003. Vaccines were introduced in 1963, An interactive version is available in the following URL: https://cdn.rawgit.com/talgalili/heatmaplyExamples/564da09e/inst/doc/measles_heatmaply.html
See this image and copyright information in PMC

References

    1. Galili T. (2015) dendextend: an R package for visualizing, adjusting and comparing trees of hierarchical clustering. Bioinformatics, 31, 3718–3720. - PMC - PubMed
    1. Gehlenborg N., Wong B. (2012) Points of view: heat maps. Nat. Methods, 9, 213–213.. - PubMed
    1. Gu Z. et al. (2016) Complex heatmaps reveal patterns and correlations in multidimensional genomic data. Bioinformatics, 32, 2847–2849. - PubMed
    1. Hahsler M. et al. (2008) Getting things in order: an introduction to the R Package seriation. J. Stat. Softw., 25, 1–27.
    1. van Panhuis W.G. et al. (2013) Contagious diseases in the United States from 1888 to the present. N. Engl. J. Med., 369, 2152–2158. - PMC - PubMed

Publication types