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sechm

sechm: Complex Heatmaps from a SummarizedExperiment


Bioconductor version: Release (3.18)

sechm provides a simple interface between SummarizedExperiment objects and the ComplexHeatmap package. It enables plotting annotated heatmaps from SE objects, with easy access to rowData and colData columns, and implements a number of features to make the generation of heatmaps easier and more flexible. These functionalities used to be part of the SEtools package.

Author: Pierre-Luc Germain [cre, aut]

Maintainer: Pierre-Luc Germain <pierre-luc.germain at hest.ethz.ch>

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

Installation

To install this package, start R (version "4.3") and enter:


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

BiocManager::install("sechm")

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("sechm")
sechm HTML R Script
Reference Manual PDF
NEWS Text

Details

biocViews GeneExpression, Software, Visualization
Version 1.10.0
In Bioconductor since BioC 3.13 (R-4.1) (3 years)
License GPL-3
Depends R (>= 4.0), SummarizedExperiment, ComplexHeatmap
Imports S4Vectors, seriation, circlize, methods, randomcoloR, stats, grid, grDevices, matrixStats
System Requirements
URL
Bug Reports https://github.com/plger/sechm
See More
Suggests BiocStyle, knitr, rmarkdown
Linking To
Enhances
Depends On Me SEtools
Imports Me
Suggests Me
Links To Me
Build Report Build Report

Package Archives

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

Source Package sechm_1.10.0.tar.gz
Windows Binary sechm_1.10.0.zip (64-bit only)
macOS Binary (x86_64) sechm_1.10.0.tgz
macOS Binary (arm64) sechm_1.10.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/sechm
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/sechm
Bioc Package Browser https://code.bioconductor.org/browse/sechm/
Package Short Url https://bioconductor.org/packages/sechm/
Package Downloads Report Download Stats