InteractiveComplexHeatmap

DOI: 10.18129/B9.bioc.InteractiveComplexHeatmap  

This package is for version 3.17 of Bioconductor; for the stable, up-to-date release version, see InteractiveComplexHeatmap.

Make Interactive Complex Heatmaps

Bioconductor version: 3.17

This package can easily make heatmaps which are produced by the ComplexHeatmap package into interactive applications. It provides two types of interactivities: 1. on the interactive graphics device, and 2. on a Shiny app. It also provides functions for integrating the interactive heatmap widgets for more complex Shiny app development.

Author: Zuguang Gu [aut, cre]

Maintainer: Zuguang Gu <z.gu at dkfz.de>

Installation

To install this package, start R (version "4.3") and enter:

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("InteractiveComplexHeatmap")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("InteractiveComplexHeatmap")

 

HTML	R Script	1. How to visualize heatmaps interactively
HTML	R Script	2. How interactive complex heatmap is implemented
HTML	R Script	3. Functions for Shiny app development
HTML	R Script	4. Decorations on heatmaps
HTML	R Script	5. Interactivate heatmaps indirectly generated by pheatmap(), heatmap.2() and heatmap()
HTML	R Script	6. A Shiny app for visualizing DESeq2 results
HTML	R Script	7. Implement interactive heatmap from scratch
HTML	R Script	8. Share interactive heatmaps to collaborators
PDF		Reference Manual
Text		NEWS
Text		LICENSE

Details

biocViews	Sequencing, Software, Visualization
Version	1.8.0
In Bioconductor since	BioC 3.13 (R-4.1) (2.5 years)
License	MIT + file LICENSE
Depends	R (>= 4.0.0), ComplexHeatmap(>= 2.11.0)
Imports	grDevices, stats, shiny, grid, GetoptLong, S4Vectors(>= 0.26.1), digest, IRanges, kableExtra (>= 1.3.1), utils, svglite, htmltools, clisymbols, jsonlite, RColorBrewer, fontawesome
LinkingTo
Suggests	knitr, rmarkdown, testthat, EnrichedHeatmap, GenomicRanges, data.table, circlize, GenomicFeatures, tidyverse, tidyHeatmap, cluster, org.Hs.eg.db, simplifyEnrichment, GO.db, SC3, GOexpress, SingleCellExperiment, scater, gplots, pheatmap, airway, DESeq2, DT, cola, BiocManager, gridtext, HilbertCurve(>= 1.21.1), shinydashboard, SummarizedExperiment, pkgndep, ks
SystemRequirements
Enhances
URL	https://github.com/jokergoo/InteractiveComplexHeatmap
BugReports	https://github.com/jokergoo/InteractiveComplexHeatmap/issues
Depends On Me
Imports Me	mineSweepR
Suggests Me	simplifyEnrichment
Links To Me
Build Report

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package	InteractiveComplexHeatmap_1.8.0.tar.gz
Windows Binary	InteractiveComplexHeatmap_1.8.0.zip (64-bit only)
macOS Binary (x86_64)	InteractiveComplexHeatmap_1.8.0.tgz
macOS Binary (arm64)	InteractiveComplexHeatmap_1.8.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/InteractiveComplexHeatmap
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/InteractiveComplexHeatmap
Bioc Package Browser	https://code.bioconductor.org/browse/InteractiveComplexHeatmap/
Package Short Url	https://bioconductor.org/packages/InteractiveComplexHeatmap/
Package Downloads Report	Download Stats