heatmaply

1.6.0

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

14packages depend

172.4Kdownloads / year

91.7%test coverage

13/13checks pass

Overview

About

Maintained by Tal GaliliFirst published 2016-05-2625 releasesCRAN page ↗GitHub ↗

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'.

Install

R (CRAN)pak (dev)Ubuntu (r2u)Fedora (COPR)openSUSE (OBS)

install.packages("heatmaply", repos = "https://cloud.r-project.org/")

Installs the current CRAN release. Prebuilt binaries on Windows and macOS.

if (!requireNamespace("pak", quietly = TRUE))
  install.packages("pak", repos = "https://cloud.r-project.org/")
pak::pak("talgalili/heatmaply")

Development version from talgalili/heatmaply. Installs pak first if it is not already available.

Release

# enable cranapt (r2u) if it is not already set up, then install
grep -rqs r2u.stat.illinois.edu /etc/apt/sources.list /etc/apt/sources.list.d/ \
  || curl -fsSL https://raw.githubusercontent.com/eddelbuettel/r2u/master/inst/scripts/add_cranapt_noble.sh | sudo bash
sudo apt install -y r-cran-heatmaply

Fast Ubuntu binaries via r2u (no compilation). The cranapt setup runs once and is skipped when it is already enabled.

bspm (used by r2u) also needs make: sudo apt install make

# enable the iucar/cran COPR if it is not already present, then install
ls /etc/yum.repos.d/*iucar*cran*.repo >/dev/null 2>&1 \
  || sudo dnf copr enable -y iucar/cran
sudo dnf install -y R-CRAN-heatmaply

RPMs from the iucar/cran COPR, rebuilt from CRAN.

For install.packages() integration in R, also: sudo dnf install R-CoprManager

# add the autoCRAN OBS repo (Tumbleweed) if it is missing, then install
zypper -q lr | grep -qi autoCRAN \
  || sudo zypper addrepo https://download.opensuse.org/repositories/devel:/languages:/R:/autoCRAN/openSUSE_Tumbleweed/devel:languages:R:autoCRAN.repo
sudo zypper install -y R-heatmaply

RPMs auto-built from CRAN on openSUSE OBS (Tumbleweed).

Health

CRAN checks

13OK

Slowest check: 8.3 min · r-devel-linux-x86_64-fedora-clang

Code health

Yes

Tests · ratio 0.17

91.7%

Coverage · measured lines

100%

Documentation · exports

Dependencies · direct

Check history

OK2026-06-09
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-06-08
12 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
OK2026-04-25
12 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
NOTE2026-03-10
11 OK · 3 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMEYes · 895 wordsVignettesYes · dynamicpkgdown siteNoNEWSYes · 33% structuredCode of conductNoContributing guideNo

Examples that run: 29%
Documented parameters: 86%
Return-value docs: 67%
References docs: 10%

Downloads

172.4K

CRAN downloads in the past year

Rank #1,041 · ~472/day · ~14.4K/mo

Releases R versions

Daily download trend is not available in this view yet.

10.7K30 days

42.1K90 days

172.4K1 year

Compare downloads with other packages →

Also on713 r2u31 autocran8.4K conda_forge37 c2d4u

Repository

GitHub ↗ talgalili/heatmaply

406Stars

75Forks

38Open issues

1Open PRs

1Releases

613Commits

13Contributors

heatmapdendrogramggplot2d3-heatmapdendextendcranrplotly

613 commits · Last activity 2025-11-29 · +0.2% stars, 30d

Stars over time

2025-07-21 · 3882026-07-18 · 406

Repository practices

Upstream repositoryBeta

5 development-tooling and community-health practices detected across 4 families in the upstream repository

Checks run against github.com/talgalili/heatmaply on 2026-07-19.

Continuous integration (2)

GitHub ActionsTravis CI

Reproducibility and dev environment (1)

Makefile

Lint, format, editor (1)

RStudio project

Governance and community (1)

Issue templates

How this is detected·Detection ruleset v1 (2026-07-18)

Dependencies

Declared dependencies

20 external dependencies (excludes base and recommended)

Depends (3)

R >= 3.0.0plotly viridis

Imports (16)

ggplot2 dendextend magrittr (>= 1.0.1)reshape2 scales seriationutilsstatsgrDevicesmethodscolorspace RColorBrewer htmlwidgets webshot assertthat egg

LinkingTo (0)

none

Suggests (6)

knitr covr gplots tidyselect rmarkdown testthat

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

14direct

1indirect

shinyHeatmaply BayesianNetwork CALANGO inDAGO latentcor neatmaps richCluster rnmamod CNVScope dendextend gplots protti quarto rtemis

Code & Tests

Code Composition

R 4,577 (70%)Rd 1,261 (19%)Vignettes 708 (11%)

Code characteristics

Object systems

S38

Cyclomatic complexity: 1.0 median / 66 max
Test cases: 65 / 0.17 per code line

Test coverage

Line coverage

92%

Expression

88.8%

Tests / Examples

91.7% / 30% ex

Functions

50 11 exported

Complexity

6.2 avg / 66 max

Call network

50 nodes / 38 edges

Call graph

Open call graph →

Loading call graph…

Lowest coverage

50 functions

Function	Cyclo	Coverage
export	1	0%
export_orca	1	0%
hmly_to_file_1file	6	0%
paste_aes	1	0%
percentize.matrix	1	0%
size_default	1	0%

People & History

People (6)

Maintainer (1)

Tal Galili

Author, Maintainer, Copyright holder

Authors (2)

Tal Galili

Author, Maintainer, Copyright holder

Alan O'Callaghan

Author · added in 0.9.1

Contributors (3)

Jaehyun Joo

Contributor · added in 1.3.0

Jonathan Sidi

Contributor · added in 0.8.2

Mathew Simenc

Contributor · added in 1.6.0

Tal Galili

Author, Maintainer, Copyright holder

Other (1)

Yoav Benjamini

Thesis advisor · added in 0.6.0

Listed in earlier versions (1)

Alan Ocallaghan

no longer listed · 0.6.0 to 0.8.2

Package Timeline

25 releases. Pick two to compare their code metrics. R releases are shown for context.

R
R 4.6.0 released · 2026-04-24
1.6.0Latest
2025-07-12 · current release · diff ↗
R
R 4.5.0 released · 2025-04-11
R
R 4.4.0 released · 2024-04-24
1.5.0
2023-10-06 · diff ↗
R
R 4.3.0 released · 2023-04-21
1.4.2
2023-01-07 · diff ↗
1.4.0
2022-10-08 · diff ↗
R
R 4.2.0 released · 2022-04-22
1.3.0
2021-10-09 · diff ↗
R
R 4.1.0 released · 2021-05-18
1.2.1
2021-02-02 · diff ↗
1.2.0
2021-01-29 · diff ↗
1.1.1
2020-08-25 · diff ↗
R
R 4.0.0 released · 2020-04-24
1.1.0
2020-03-28 · diff ↗

Show 20 earlier events

1.0.0
2019-12-05 · diff ↗
0.16.0
2019-05-12 · diff ↗
R
R 3.6.0 released · 2019-04-26
0.15.2
2018-07-06 · diff ↗
0.15.0
2018-06-23 · diff ↗
R
R 3.5.0 released · 2018-04-23
0.14.1
2018-02-01 · diff ↗
0.14.0
2018-01-20 · diff ↗
0.13.0
2017-11-13 · diff ↗
0.12.1
2017-10-26 · diff ↗
0.11.1
2017-09-27 · diff ↗
0.10.1
2017-05-27 · diff ↗
R
R 3.4.0 released · 2017-04-21
0.9.1
2017-04-14 · diff ↗
0.8.2
2017-03-21 · diff ↗
0.7.0
2017-01-22 · diff ↗
0.6.0
2016-11-06 · diff ↗
0.5.0
2016-08-27 · diff ↗
0.3.2
2016-05-26
R
R 3.3.0 released · 2016-05-03

Package metadata

First published: 2016-05-26
Total releases: 25 / 10 yrs
License: GPL-2 | GPL-3 OSI
Minimum R: ≥ 3.0.0
Download size: 1.8 MB
Installed size: not tracked yet
With dependencies: not tracked yet

Appears in task views

Dynamic Visualizations and Interactive Graphics

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