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sechm

sechm: Complex Heatmaps from a SummarizedExperiment

Bioconductor version: Release (3.17)

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 1.8.0
In Bioconductor since BioC 3.13 (R-4.1) (2 years)
License GPL-3
Depends R (>= 4.0)
Imports S4Vectors, SummarizedExperiment, seriation, ComplexHeatmap, circlize, methods, randomcoloR, stats, grid, grDevices, matrixStats
Linking To
Suggests BiocStyle, knitr, rmarkdown
System Requirements
Enhances
URL
Bug Reports https://github.com/plger/sechm
See More
Depends On Me SEtools
Imports Me
Suggests Me
Links To Me
Build Report  

Package Archives

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

Source Package sechm_1.8.0.tar.gz
Windows Binary sechm_1.8.0.zip
macOS Binary (x86_64) sechm_1.8.0.tgz
macOS Binary (arm64) sechm_1.8.0.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