sechm

This package is for version 3.13 of Bioconductor; for the stable, up-to-date release version, see sechm.

sechm: Complex Heatmaps from a SummarizedExperiment


Bioconductor version: 3.13

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 "4.1") 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 1.0.0
In Bioconductor since BioC 3.13 (R-4.1) (3 years)
License GPL-3
Depends R (>= 4.1)
Imports S4Vectors, SummarizedExperiment, seriation, ComplexHeatmap, circlize, methods, randomcoloR, stats, grid, grDevices
System Requirements
URL
Bug Reports https://github.com/plger/sechm
See More
Suggests BiocStyle, knitr, rmarkdown
Linking To
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Depends On Me
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Build Report Build Report

Package Archives

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

Source Package sechm_1.0.0.tar.gz
Windows Binary sechm_1.0.0.zip
macOS 10.13 (High Sierra) sechm_1.0.0.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
Old Source Packages for BioC 3.13 Source Archive