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biobroom

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

Turn Bioconductor objects into tidy data frames


Bioconductor version: Development (3.19)

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 emory.edu>

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

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("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")
Vignette Title HTML R Script
Reference Manual PDF
NEWS Text

Details

biocViews DataImport, DifferentialExpression, GeneExpression, MultipleComparison, Proteomics, Regression, Software
Version 1.35.0
In Bioconductor since BioC 3.2 (R-3.2) (8.5 years)
License LGPL
Depends R (>= 3.0.0), broom
Imports dplyr, tidyr, Biobase
System Requirements
URL https://github.com/StoreyLab/biobroom
Bug Reports https://github.com/StoreyLab/biobroom/issues
See More
Suggests limma, DESeq2, airway, ggplot2, plyr, GenomicRanges, testthat, magrittr, edgeR, qvalue, knitr, data.table, MSnbase, rmarkdown, SummarizedExperiment
Linking To
Enhances
Depends On Me
Imports Me TPP
Suggests Me
Links To Me
Build Report Build Report

Package Archives

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

Source Package biobroom_1.35.0.tar.gz
Windows Binary biobroom_1.35.0.zip (64-bit only)
macOS Binary (x86_64) biobroom_1.35.0.tgz
macOS Binary (arm64) biobroom_1.35.0.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