InteractiveComplexHeatmap

This package is for version 3.20 of Bioconductor; for the stable, up-to-date release version, see InteractiveComplexHeatmap.

Make Interactive Complex Heatmaps

DOI: 10.18129/B9.bioc.InteractiveComplexHeatmap

Bioconductor version: 3.20

This package can easily make heatmaps which are produced by the ComplexHeatmap package into interactive applications. It provides two types of interactivities: 1. on the interactive graphics device, and 2. on a Shiny app. It also provides functions for integrating the interactive heatmap widgets for more complex Shiny app development.

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

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

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

Installation

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


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

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("InteractiveComplexHeatmap")

1. How to visualize heatmaps interactively HTML R Script

2. How interactive complex heatmap is implemented HTML R Script

3. Functions for Shiny app development HTML R Script

4. Decorations on heatmaps HTML R Script

5. Interactivate heatmaps indirectly generated by pheatmap(), heatmap.2() and heatmap() HTML R Script

6. A Shiny app for visualizing DESeq2 results HTML R Script

7. Implement interactive heatmap from scratch HTML R Script

8. Share interactive heatmaps to collaborators 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 1.14.0

In Bioconductor since BioC 3.13 (R-4.1) (4 years)

License MIT + file LICENSE

Depends R (>= 4.0.0), ComplexHeatmap(>= 2.11.0)

Imports grDevices, stats, shiny, grid, GetoptLong, S4Vectors(>= 0.26.1), digest, IRanges, kableExtra (>= 1.3.1), utils, svglite, htmltools, clisymbols, jsonlite, RColorBrewer, fontawesome

System Requirements

URL https://github.com/jokergoo/InteractiveComplexHeatmap

Bug Reports https://github.com/jokergoo/InteractiveComplexHeatmap/issues

Suggests knitr, rmarkdown, testthat, EnrichedHeatmap, GenomicRanges, data.table, circlize, GenomicFeatures, tidyverse, tidyHeatmap, cluster, org.Hs.eg.db, simplifyEnrichment, GO.db, SC3, GOexpress, SingleCellExperiment, scater, gplots, pheatmap, airway, DESeq2, DT, cola, BiocManager, gridtext, HilbertCurve(>= 1.21.1), shinydashboard, SummarizedExperiment, pkgndep, ks

Linking To

Enhances

Depends On Me

Imports Me CRISPRball, gINTomics, mineSweepR

Suggests Me CTexploreR, simona, simplifyEnrichment, metasnf

Links To Me

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Package Archives

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

Source Package InteractiveComplexHeatmap_1.14.0.tar.gz

Windows Binary (x86_64) InteractiveComplexHeatmap_1.14.0.zip (64-bit only)

macOS Binary (x86_64) InteractiveComplexHeatmap_1.14.0.tgz

macOS Binary (arm64) InteractiveComplexHeatmap_1.14.0.tgz

Source Repository git clone https://git.bioconductor.org/packages/InteractiveComplexHeatmap

Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/InteractiveComplexHeatmap

Bioc Package Browser https://code.bioconductor.org/browse/InteractiveComplexHeatmap/

Package Short Url https://bioconductor.org/packages/InteractiveComplexHeatmap/

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