biobroom

DOI: 10.18129/B9.bioc.biobroom  

Turn Bioconductor objects into tidy data frames

Bioconductor version: Release (3.16)

This package contains methods for converting standard objects constructed by bioinformatics packages, especially those in Bioconductor, and converting them to tidy data. It thus serves as a complement to the broom package, and follows the same the tidy, augment, glance division of tidying methods. Tidying data makes it easy to recombine, reshape and visualize bioinformatics analyses.

Author: Andrew J. Bass, David G. Robinson, Steve Lianoglou, Emily Nelson, John D. Storey, with contributions from Laurent Gatto

Maintainer: John D. Storey <jstorey at princeton.edu> and Andrew J. Bass <ajbass at princeton.edu>

Installation

To install this package, start R (version "4.2") and enter:

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

BiocManager::install("biobroom")

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("biobroom")

 

HTML	R Script	Vignette Title
PDF		Reference Manual
Text		NEWS

Details

biocViews	DataImport, DifferentialExpression, GeneExpression, MultipleComparison, Proteomics, Regression, Software
Version	1.30.0
In Bioconductor since	BioC 3.2 (R-3.2) (7.5 years)
License	LGPL
Depends	R (>= 3.0.0), broom
Imports	dplyr, tidyr, Biobase
LinkingTo
Suggests	limma, DESeq2, airway, ggplot2, plyr, GenomicRanges, testthat, magrittr, edgeR, qvalue, knitr, data.table, MSnbase, rmarkdown, SummarizedExperiment
SystemRequirements
Enhances
URL	https://github.com/StoreyLab/biobroom
BugReports	https://github.com/StoreyLab/biobroom/issues
Depends On Me
Imports Me	TPP
Suggests Me
Links To Me
Build Report

Package Archives

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

Source Package	biobroom_1.30.0.tar.gz
Windows Binary	biobroom_1.30.0.zip
macOS Binary (x86_64)	biobroom_1.30.0.tgz
macOS Binary (arm64)	biobroom_1.30.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/biobroom
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/biobroom
Bioc Package Browser	https://code.bioconductor.org/browse/biobroom/
Package Short Url	https://bioconductor.org/packages/biobroom/
Package Downloads Report	Download Stats