rGREAT

DOI: 10.18129/B9.bioc.rGREAT    

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

Client for GREAT Analysis

Bioconductor version: Development (3.14)

This package makes GREAT (Genomic Regions Enrichment of Annotations Tool) analysis automatic by constructing a HTTP POST request according to user's input and automatically retrieving results from GREAT web server.

Author: Zuguang Gu

Maintainer: Zuguang Gu <z.gu at dkfz.de>

Installation

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

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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("rGREAT")

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("rGREAT")

 

HTML	R Script	Analyze with GREAT
PDF		Reference Manual
Text		NEWS
Text		LICENSE

Details

biocViews	Coverage, GO, GeneSetEnrichment, GenomeAnnotation, Pathways, Sequencing, Software, WholeGenome
Version	1.25.2
In Bioconductor since	BioC 3.1 (R-3.2) (6.5 years)
License	MIT + file LICENSE
Depends	R (>= 3.1.2), GenomicRanges, IRanges, methods
Imports	rjson, GetoptLong (>= 0.0.9), RCurl, utils, stats
LinkingTo
Suggests	testthat (>= 0.3), knitr, circlize (>= 0.4.8), rmarkdown
SystemRequirements
Enhances
URL	https://github.com/jokergoo/rGREAT http://great.stanford.edu/public/html/
Depends On Me
Imports Me	profileplyr
Suggests Me	TADCompare
Links To Me
Build Report

Package Archives

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

Source Package	rGREAT_1.25.2.tar.gz
Windows Binary	rGREAT_1.25.2.zip (32- & 64-bit)
macOS 10.13 (High Sierra)	rGREAT_1.25.2.tgz
Source Repository	git clone https://git.bioconductor.org/packages/rGREAT
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/rGREAT
Package Short Url	https://bioconductor.org/packages/rGREAT/
Package Downloads Report	Download Stats