ComplexHeatmap
This is the released version of ComplexHeatmap; for the devel version, see ComplexHeatmap.
All Bioconductor versions of ComplexHeatmap
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: 3.23 · Package version: 2.28.0
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.
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 2.28.0, 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")
BiocManager::install("ComplexHeatmap")For older versions of R, please refer to the appropriate Bioconductor release.
Details
| Version | 2.28.0 |
| License | MIT + file LICENSE |
| URL | https://github.com/jokergoo/ComplexHeatmap https://jokergoo.github.io/ComplexHeatmap-reference/book/ |
| Last updated | 2026-04-28 |
| In Bioconductor since | BioC 3.1 (R-3.2) (11 years) |
| Downloads rank | 42 of 2,418 |
| Source branch | RELEASE_3_23 |
| Build report | Bioconductor build system, r-universe |
| biocViews | Sequencing, Software, Visualization |
| Package Short Url | https://bioconductor.org/packages/ComplexHeatmap/ |
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("ComplexHeatmap")| ComplexHeatmap vignette | HTML | |
| Most probably asked questions | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Download
Follow the installation instructions to use this package in your R session.
| Source package | ComplexHeatmap_2.28.0.tar.gz |
| Windows binary (x86_64) | ComplexHeatmap_2.28.0.zip |
| macOS binary (arm64) | ComplexHeatmap_2.28.0.tgz |
| macOS binary (x86_64) | ComplexHeatmap_2.28.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/ComplexHeatmap |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/ComplexHeatmap |
| Package Downloads Report | Download Stats |
Dependencies
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
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
Reverse dependencies
Depends On Me (6): AMARETTO, EnrichedHeatmap, InteractiveComplexHeatmap, multistateQTL, recoup, sechm
Imports Me (128): airpart, ASURAT, autoGO, barbieQ, bettr, BindingSiteFinder, BioNERO, blacksheepr, blisa, BloodGen3Module, BreastSubtypeR, BulkSignalR, CATALYST, CCPlotR, celda, cellGeometry, CellWindX, CeTF, chevreulPlot, chevreulShiny, ClustAll, COCOA, coda4microbiome, cola, conos, COTAN, CRISPRball, CTexploreR, cytoKernel, damidBind, Damsel, dar, DEGreport, DeSciDe, diffcyt, diffUTR, dinoR, dominoSignal, ELMER, ELViS, epiregulon.extra, fCCAC, FLAMES, GAPR, gCrisprTools, GeDi, GeneTonic, GenomicPlot, GenomicSuperSignature, geyser, gINTomics, gmoviz, goatea, GRaNIE, 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, POMA, profileplyr, PRONE, rCISSVAE, RepeatedHighDim, RFLOMICS, RiboCrypt, rKOMICS, RNAseqQC, RNAshapeQC, RUCova, scafari, scRNAseqApp, segmenter, shinyDSP, signifinder, simona, simplifyEnrichment, SingleCellComplexHeatMap, SingleCellSignalR, singleCellTK, sparrow, spatialGE, spatialLIBD, spiralize, SPONGE, StatescopeR, TBSignatureProfiler, thisplot, tidyHeatmap, TMSig, TransProR, ViSEAGO, visxhclust, wilson, Xeva, YAPSA
Suggests Me (65): artMS, bambu, BeeBDC, bifrost, Canton, celliverse, CIARA, circlize, circlizePlus, ClustAssess, ClusterGVis, clustifyr, CNVRanger, CNVScope, ConsensusOPLS, Coralysis, curatedPCaData, demuxSNP, diffHTS, dittoSeq, EnrichmentBrowser, 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