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

Need some help? Ask on the Bioconductor Support site!

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

Suggests BiocStyle, knitr, rmarkdown

Linking To

Enhances

Depends On Me

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_1.0.0.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