ComplexHeatmap

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

All versions

3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15, 3.14, 3.13, 3.12, 3.11, 3.10, 3.9, 3.8, 3.7, 3.6, 3.5, 3.4, 3.3, 3.2, 3.1

Make Complex Heatmaps

Bioconductor version: Development (3.24)

Complex heatmaps are efficient to visualize associations between different sources of data sets and reveal potential patterns. Here the ComplexHeatmap package provides a highly flexible way to arrange multiple heatmaps and supports various annotation graphics.

Author: Zuguang Gu [aut, cre] ORCID: 0000-0002-7395-8709

Maintainer: Zuguang Gu <guzuguang at suat-sz.edu.cn>

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

Zuguang Gu. ComplexHeatmap: Make Complex Heatmaps. doi:10.18129/B9.bioc.ComplexHeatmap, R package version 2.29.0, https://bioconductor.org/packages/ComplexHeatmap.

Generated from the package metadata; it may differ from the package's own citation.

Installation

To install this package, start R (version "4.6") and enter:

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

## The following initializes the development version of Bioconductor
BiocManager::install(version = "devel")

BiocManager::install("ComplexHeatmap")

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("ComplexHeatmap")

complex_heatmap.html	HTML
Most probably asked questions	HTML	R Script
Reference Manual	PDF
NEWS	Text
LICENSE	Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	Sequencing, Software, Visualization
Version	2.29.0
In Bioconductor since	BioC 3.1 (R-3.2) (11.5 years)
License	MIT + file LICENSE
Depends	R (>= 4.0.0), methods, grid, graphics, stats, grDevices
Imports	circlize (>= 0.4.14), GetoptLong, colorspace, clue, RColorBrewer, GlobalOptions (>= 0.1.0), png, digest, IRanges, matrixStats, foreach, doParallel, codetools
System Requirements
URL	https://github.com/jokergoo/ComplexHeatmap https://jokergoo.github.io/ComplexHeatmap-reference/book/

Suggests	testthat (>= 1.0.0), knitr, markdown, dendsort, jpeg, tiff, fastcluster, EnrichedHeatmap, dendextend (>= 1.0.1), grImport, grImport2, glue, GenomicRanges, gridtext, pheatmap (>= 1.0.12), gridGraphics, gplots, rmarkdown, Cairo, magick
Linking To
Enhances
Depends On Me	AMARETTO, EnrichedHeatmap, InteractiveComplexHeatmap, multistateQTL, recoup, sechm
Imports Me	airpart, ASURAT, autoGO, barbieQ, bettr, BindingSiteFinder, BioNERO, blacksheepr, blisa, BloodGen3Module, BreastSubtypeR, BulkSignalR, CATALYST, CCPlotR, celda, cellGeometry, CellWindX, CeTF, chevreulPlot, chevreulShiny, CLAMP, ClustAll, COCOA, coda4microbiome, cola, conos, COTAN, CRISPRball, CTexploreR, CySA, cytoKernel, damidBind, Damsel, dar, DEGreport, DEP, DeSciDe, diffcyt, diffUTR, dinoR, dominoSignal, ELMER, ELViS, EMTscore, epiregulon.extra, fCCAC, FLAMES, GAPR, gCrisprTools, GeDi, GeneTonic, GenomicPlot, GenomicSuperSignature, geyser, gINTomics, gmoviz, goatea, GRaNIE, GSEAlens, GSSTDA, gVenn, hermes, hoodscanR, HybridExpress, iModMix, InterCellar, iSEE, karyotapR, MAPFX, markeR, MatrixQCvis, MesKit, MetaHD, mineSweepR, missoNet, MitoHEAR, mitology, MKomics, MOMA, monaLisa, Moonlight2R, MOSClip, MPAC, MultiRNAflow, muscat, musicatk, MWASTools, nipalsMCIA, ogrdbstats, Path.Analysis, pathlinkR, PathoStat, PCAPAM50, PeacoQC, pipeComp, pkgndep, polyICSFlow, POMA, profileplyr, PRONE, quantMSImageR, rCISSVAE, RepeatedHighDim, RFLOMICS, RiboCrypt, rKOMICS, RNAseqQC, RNAshapeQC, RnBeads, RUCova, scafari, scRNAseqApp, segmenter, shinyDSP, signifinder, simona, simplifyEnrichment, SingleCellComplexHeatMap, SingleCellSignalR, singleCellTK, sparrow, spatialGE, spatialLIBD, spiralize, SPONGE, StatescopeR, TBSignatureProfiler, thisplot, TiDEomics, tidyHeatmap, TMSig, TransProR, ViSEAGO, visxhclust, wilson, Xeva, YAPSA
Suggests Me	artMS, bambu, BeeBDC, bifrost, Canton, celliverse, CIARA, circlize, circlizePlus, ClustAssess, ClusterGVis, clustifyr, CNVRanger, CNVScope, CONCERTDR, ConsensusOPLS, Coralysis, curatedPCaData, demuxSNP, DiffBind, diffHTS, dittoSeq, EnrichmentBrowser, fishash, FlowSOM, ggbond, ggpicrust2, glydraw, grandR, GRIN2, gtrellis, HilbertCurve, inferCSN, IOBR, LegATo, mastR, metasnf, miaViz, msImpute, msqrob2, multipanelfigure, NanoporeRNASeq, pepdiff, piglet, plotgardener, plotthis, projectR, ProteinGymR, QFeatures, raer, rliger, scCustomize, scDblFinder, scDiagnostics, scLANE, SCpubr, SeuratExplorer, sfcurve, singleCellHaystack, SpaceMarkers, SPIAT, SRscore, TCGAbiolinks, TCGAutils, tinyarray, VISTA, VizModules, weitrix
Links To Me
Build Report	Build Report, r-universe

Package Archives

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

Source Package	ComplexHeatmap_2.29.0.tar.gz
Windows Binary (x86_64)	ComplexHeatmap_2.29.0.zip
macOS Binary (big-sur-x86_64)	ComplexHeatmap_2.29.0.tgz
macOS Binary (sonoma-arm64)	ComplexHeatmap_2.29.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/ComplexHeatmap
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/ComplexHeatmap
Package Short Url	https://bioconductor.org/packages/ComplexHeatmap/
Package Downloads Report	Download Stats