SEtools

DOI: 10.18129/B9.bioc.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>

Installation

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

if (!requireNamespace("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")

 

HTML	R Script	SEtools
PDF		Reference Manual
Text		NEWS

Details

biocViews	GeneExpression, Software, Visualization
Version	1.6.0
In Bioconductor since	BioC 3.10 (R-3.6) (2 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
LinkingTo
Suggests	BiocStyle, knitr, rmarkdown, ggplot2, pheatmap
SystemRequirements
Enhances
URL
BugReports	https://github.com/plger/SEtools
Depends On Me
Imports Me
Suggests Me
Links To Me
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
Package Short Url	https://bioconductor.org/packages/SEtools/
Package Downloads Report	Download Stats