Package: heatmaply 1.5.0

heatmaply: Interactive Cluster Heat Maps Using 'plotly' and 'ggplot2'

Create interactive cluster 'heatmaps' that can be saved as a stand- alone HTML file, embedded in 'R Markdown' documents or in a 'Shiny' app, and available in the 'RStudio' viewer pane. Hover the mouse pointer over a cell to show details or drag a rectangle to zoom. A 'heatmap' is a popular graphical method for visualizing high-dimensional data, in which a table of numbers are encoded as a grid of colored cells. The rows and columns of the matrix are ordered to highlight patterns and are often accompanied by 'dendrograms'. 'Heatmaps' are used in many fields for visualizing observations, correlations, missing values patterns, and more. Interactive 'heatmaps' allow the inspection of specific value by hovering the mouse over a cell, as well as zooming into a region of the 'heatmap' by dragging a rectangle around the relevant area. This work is based on the 'ggplot2' and 'plotly.js' engine. It produces similar 'heatmaps' to 'heatmap.2' with the advantage of speed ('plotly.js' is able to handle larger size matrix), the ability to zoom from the 'dendrogram' panes, and the placing of factor variables in the sides of the 'heatmap'.

Authors:Tal Galili [aut, cre, cph], Alan O'Callaghan [aut], Jonathan Sidi [ctb], Jaehyun Joo [ctb], Yoav Benjamini [ths], Mathew Simenc [ctb]

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heatmaply.pdf |heatmaply.html
heatmaply/json (API)
NEWS

# Install 'heatmaply' in R:
install.packages('heatmaply', repos = c('https://talgalili.r-universe.dev', 'https://cloud.r-project.org'))

Peer review:

Bug tracker:https://github.com/talgalili/heatmaply/issues

On CRAN:

d3-heatmapdendextenddendrogramggplot2heatmapplotly

14.03 score 378 stars 44 packages 1.9k scripts 7.5k downloads 45 mentions 38 exports 93 dependencies

Last updated 4 months agofrom:424dae0043. Checks:OK: 3 NOTE: 4. Indexed: yes.

TargetResultDate
Doc / VignettesOKNov 13 2024
R-4.5-winNOTENov 13 2024
R-4.5-linuxNOTENov 13 2024
R-4.4-winNOTENov 13 2024
R-4.4-macNOTENov 13 2024
R-4.3-winOKNov 13 2024
R-4.3-macOKNov 13 2024

Exports:BluesBrBGBuGnBuPucool_warmggheatmapGnBuGreensGreysheatmaplyheatmaply_corheatmaply_naheatmapris.heatmapris.na10is.plotlynormalizeOrangesOrRdpercentizePiYGPRGnPuBuPuBuGnPuOrPuRdPurplesRdBuRdGyRdPuRdYlBuRdYlGnRedsSpectralYlGnYlGnBuYlOrBrYlOrRd

Dependencies:askpassassertthatbase64encbslibcacachemcallrcliclustercodetoolscolorspacecpp11crosstalkcurldata.tabledendextenddigestdplyreggevaluatefansifarverfastmapfontawesomeforeachfsgclusgenericsggplot2gluegridExtragtablehighrhtmltoolshtmlwidgetshttrisobanditeratorsjquerylibjsonliteknitrlabelinglaterlatticelazyevallifecyclemagrittrMASSMatrixmemoisemgcvmimemunsellnlmeopensslpermutepillarpkgconfigplotlyplyrprocessxpromisespspurrrqapR6rappdirsRColorBrewerRcppregistryreshape2rlangrmarkdownsassscalesseriationstringistringrsystibbletidyrtidyselecttinytexTSPutf8vctrsveganviridisviridisLitewebshotwithrxfunyaml

Introduction to heatmaply

Rendered fromheatmaply.Rmdusingknitr::rmarkdownon Nov 13 2024.

Last update: 2022-10-08
Started: 2016-05-25

Readme and manuals

Help Manual

Help pageTopics
ggplot heatmap equivalent to heatmaplyggheatmap
Side color plots for heatmapsggplot_side_color_plot
Cluster heatmap based on plotlyheatmaply heatmaply.default heatmaply.heatmapr heatmaply_cor heatmaply_na
Creates a heatmapr objectheatmapr
Is the object of class heatmapris.heatmapr
Indicates which elements are missing (either 1 and 0)is.na10
Checks if an object is of class plotly or not.is.plotly
Normalization transformation (0-1)normalize normalize.data.frame normalize.default normalize.matrix
Empirical Percentile Transformationpercentize percentize.data.frame percentize.default percentize.matrix
RColorBrewer color Ramp PaletteBlues BrBG BuGn BuPu cool_warm GnBu Greens Greys Oranges OrRd PiYG PRGn PuBu PuBuGn PuOr PuRd Purples RColorBrewer_colors RdBu RdGy RdPu RdYlBu RdYlGn Reds Spectral YlGn YlGnBu YlOrBr YlOrRd