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SEtools

This is the development version of SEtools; for the stable release version, see SEtools.

SEtools: tools for working with SummarizedExperiment


Bioconductor version: Development (3.20)

This includes a set of convenience functions for working with the SummarizedExperiment class. Note that plotting functions historically in this package have been moved to the sechm package (see vignette for details).

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 "4.4") and enter:


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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

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
Version 1.19.0
In Bioconductor since BioC 3.10 (R-3.6) (4.5 years)
License GPL
Depends R (>= 4.0), SummarizedExperiment, sechm
Imports BiocParallel, Matrix, DESeq2, S4Vectors, data.table, edgeR, openxlsx, pheatmap, stats, circlize, methods, sva
System Requirements
URL
Bug Reports https://github.com/plger/SEtools
See More
Suggests BiocStyle, knitr, rmarkdown, ggplot2
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_1.19.0.tar.gz
Windows Binary SEtools_1.19.0.zip
macOS Binary (x86_64) SEtools_1.19.0.tgz
macOS Binary (arm64) SEtools_1.19.0.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