rGREAT

This package is for version 3.13 of Bioconductor; for the stable, up-to-date release version, see rGREAT.

Client for GREAT Analysis

Bioconductor version: 3.13

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>

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

Installation

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


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

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")

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

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	Coverage, GO, GeneSetEnrichment, GenomeAnnotation, Pathways, Sequencing, Software, WholeGenome
Version	1.24.0
In Bioconductor since	BioC 3.1 (R-3.2) (9 years)
License	MIT + file LICENSE
Depends	R (>= 3.1.2), GenomicRanges, IRanges, methods
Imports	rjson, GetoptLong (>= 0.0.9), RCurl, utils, stats
System Requirements
URL	https://github.com/jokergoo/rGREAT http://great.stanford.edu/public/html/

Suggests	testthat (>= 0.3), knitr, circlize (>= 0.4.8), rmarkdown
Linking To
Enhances
Depends On Me
Imports Me	profileplyr
Suggests Me	TADCompare
Links To Me
Build Report	Build Report

Package Archives

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

Source Package	rGREAT_1.24.0.tar.gz
Windows Binary	rGREAT_1.24.0.zip (32- & 64-bit)
macOS 10.13 (High Sierra)	rGREAT_1.24.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/rGREAT
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/rGREAT
Bioc Package Browser	https://code.bioconductor.org/browse/rGREAT/
Package Short Url	https://bioconductor.org/packages/rGREAT/
Package Downloads Report	Download Stats
Old Source Packages for BioC 3.13	Source Archive