EnrichedHeatmap
This is the development version of EnrichedHeatmap; for the stable release version, see EnrichedHeatmap.
Making Enriched Heatmaps
Bioconductor version: Development (3.21)
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] (ORCID:
Maintainer: Zuguang Gu <z.gu at dkfz.de>
citation("EnrichedHeatmap")):
Installation
To install this package, start R (version "4.5") 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 | ||
| NEWS | Text | |
| LICENSE | Text |
Details
| biocViews | Coverage, GenomeAnnotation, Sequencing, Software, Visualization |
| Version | 1.37.0 |
| 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 |
See More
| 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_1.37.0.tar.gz |
| Windows Binary (x86_64) | |
| macOS Binary (x86_64) | |
| macOS Binary (arm64) | |
| 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 |