RLHub

DOI: 10.18129/B9.bioc.RLHub  

This package is for version 3.16 of Bioconductor; for the stable, up-to-date release version, see RLHub.

An ExperimentHub package for accessing processed RLSuite data sets

Bioconductor version: 3.16

| RLHub provides a convenient interface to the processed data provided within RLSuite, a tool-chain for analyzing R-loop-mapping data sets. The primary purpose of RLHub is to serve the processed data sets required by the RLSeq R package and the RLBase web service. Additionally, RLHub provides a stand-alone R interface to these data, benefiting users who are addressing questions related to R-loop regions (RL-Regions), R-loop-binding proteins (RLBPs), R-loop co-localizing factors, and the differences between R-loop-mapping methods. The full data-generating protocol is found here: https://github.com/Bishop-Laboratory/RLBase-data.

Author: Henry Miller [aut, cre, cph] , Alexander Bishop [ths, cph]

Maintainer: Henry Miller <millerh1 at uthscsa.edu>

Installation

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

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

BiocManager::install("RLHub")

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("RLHub")

 

HTML	R Script	Accessing RLHub Data
PDF		Reference Manual
Text		NEWS
Text		LICENSE

Details

biocViews	ChIPSeqData, DNASeqData, ENCODE, ExperimentData, ExperimentHub, ExpressionData, GEO, Genome, PackageTypeData, RNASeqData, ReproducibleResearch, SequencingData
Version	1.4.0
License	MIT + file LICENSE
Depends
Imports	AnnotationHub, ExperimentHub, utils
LinkingTo
Suggests	knitr, DT, rmarkdown, testthat, BiocStyle
SystemRequirements
Enhances
URL	https://github.com/Bishop-Laboratory/RLHub https://bishop-laboratory.github.io/RLHub/
BugReports	https://github.com/Bishop-Laboratory/RLHub/issues
Depends On Me
Imports Me	RLSeq
Suggests Me
Links To Me
Build Report

Package Archives

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

Source Package	RLHub_1.4.0.tar.gz
Windows Binary
macOS Binary (x86_64)
macOS Binary (arm64)
Source Repository	git clone https://git.bioconductor.org/packages/RLHub
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/RLHub
Package Short Url	https://bioconductor.org/packages/RLHub/
Package Downloads Report	Download Stats