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EnrichedHeatmap

This is the development version of EnrichedHeatmap; for the stable release version, see EnrichedHeatmap.

Making Enriched Heatmaps

Bioconductor version: Development (3.18)

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 "4.3") and enter: 

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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

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

Details

biocViews Coverage, GenomeAnnotation, Sequencing, Software, Visualization
Version 1.31.0
In Bioconductor since BioC 3.2 (R-3.2) (8 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
Linking To Rcpp
Suggests testthat (>= 0.3), knitr, markdown, rmarkdown, genefilter, RColorBrewer
System Requirements
Enhances
URL https://github.com/jokergoo/EnrichedHeatmap
See More
Depends On Me
Imports Me extraChIPs, profileplyr
Suggests Me ComplexHeatmap, epistack, InteractiveComplexHeatmap
Links To Me
Build Report  

Package Archives

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

Source Package EnrichedHeatmap_1.31.0.tar.gz
Windows Binary EnrichedHeatmap_1.31.0.zip
macOS Binary (x86_64) EnrichedHeatmap_1.31.0.tgz
macOS Binary (arm64) EnrichedHeatmap_1.31.0.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