EnrichedHeatmap

This is the released version of EnrichedHeatmap; for the devel version, see EnrichedHeatmap.

Making Enriched Heatmaps

Bioconductor version: Release (3.20)

Enriched heatmap is a special type of heatmap which visualizes the enrichment of genomic signals on specific target regions. Here we implement enriched heatmap by ComplexHeatmap package. Since this type of heatmap is just a normal heatmap but with some special settings, with the functionality of ComplexHeatmap, it would be much easier to customize the heatmap as well as concatenating to a list of heatmaps to show correspondance between different data sources.

Author: Zuguang Gu [aut, cre]

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

Citation (from within R, enter citation("EnrichedHeatmap")):

Installation

To install this package, start R (version "4.4") and enter:


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

BiocManager::install("EnrichedHeatmap")

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("EnrichedHeatmap")

1. Make Enriched Heatmaps	HTML	R Script
2. Visualize Categorical Signals	HTML	R Script
3. Compare row ordering methods	HTML	R Script
4. Visualize Comprehensive Associations in Roadmap dataset	HTML	R Script
Reference Manual	PDF
NEWS	Text
LICENSE	Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	Coverage, GenomeAnnotation, Sequencing, Software, Visualization
Version	1.36.0
In Bioconductor since	BioC 3.2 (R-3.2) (9 years)
License	MIT + file LICENSE
Depends	R (>= 3.6.0), methods, grid, ComplexHeatmap(>= 2.11.0), GenomicRanges
Imports	matrixStats, stats, GetoptLong, Rcpp, utils, locfit, circlize (>= 0.4.5), IRanges
System Requirements
URL	https://github.com/jokergoo/EnrichedHeatmap

Suggests	testthat (>= 0.3), knitr, markdown, rmarkdown, genefilter, RColorBrewer
Linking To	Rcpp
Enhances
Depends On Me
Imports Me	profileplyr
Suggests Me	ComplexHeatmap, InteractiveComplexHeatmap, epistack, extraChIPs
Links To Me
Build Report	Build Report

Package Archives

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

Source Package	EnrichedHeatmap_1.36.0.tar.gz
Windows Binary (x86_64)	EnrichedHeatmap_1.36.0.zip
macOS Binary (x86_64)	EnrichedHeatmap_1.36.0.tgz
macOS Binary (arm64)	EnrichedHeatmap_1.36.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/EnrichedHeatmap
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/EnrichedHeatmap
Bioc Package Browser	https://code.bioconductor.org/browse/EnrichedHeatmap/
Package Short Url	https://bioconductor.org/packages/EnrichedHeatmap/
Package Downloads Report	Download Stats