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RLHub

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

An ExperimentHub package for accessing processed RLSuite data sets


Bioconductor version: Development (3.19)

| 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>

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

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

Details

biocViews ChIPSeqData, DNASeqData, ENCODE, ExperimentData, ExperimentHub, ExpressionData, GEO, Genome, PackageTypeData, RNASeqData, ReproducibleResearch, SequencingData
Version 1.9.0
License MIT + file LICENSE
Depends
Imports AnnotationHub, ExperimentHub, utils
System Requirements
URL https://github.com/Bishop-Laboratory/RLHub https://bishop-laboratory.github.io/RLHub/
Bug Reports https://github.com/Bishop-Laboratory/RLHub/issues
See More
Suggests knitr, DT, rmarkdown, testthat, BiocStyle
Linking To
Enhances
Depends On Me
Imports Me RLSeq
Suggests Me
Links To Me
Build Report Build Report

Package Archives

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

Source Package RLHub_1.9.0.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