SEtools

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

SEtools: tools for working with SummarizedExperiment


Bioconductor version: 3.13

This includes a set of tools for working with the SummarizedExperiment class, including merging, melting, aggregation and plotting functions. In particular, SEtools offers a simple interface for plotting complex heatmaps from SE objects.

Author: Pierre-Luc Germain [cre, aut]

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

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

Installation

To install this package, start R (version "4.1") and enter:


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

BiocManager::install("SEtools")

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

Details

biocViews GeneExpression, Software, Visualization
Version 1.6.0
In Bioconductor since BioC 3.10 (R-3.6) (4.5 years)
License GPL
Depends R (>= 4.0)
Imports S4Vectors, SummarizedExperiment, data.table, seriation, ComplexHeatmap, circlize, methods, BiocParallel, randomcoloR, edgeR, openxlsx, sva, stats, DESeq2, Matrix, grid
System Requirements
URL
Bug Reports https://github.com/plger/SEtools
See More
Suggests BiocStyle, knitr, rmarkdown, ggplot2, pheatmap
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 SEtools_1.6.0.tar.gz
Windows Binary SEtools_1.6.0.zip
macOS 10.13 (High Sierra) SEtools_1.6.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/SEtools
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/SEtools
Bioc Package Browser https://code.bioconductor.org/browse/SEtools/
Package Short Url https://bioconductor.org/packages/SEtools/
Package Downloads Report Download Stats
Old Source Packages for BioC 3.13 Source Archive