rGREAT

DOI: 10.18129/B9.bioc.rGREAT    

This package is for version 3.15 of Bioconductor; for the stable, up-to-date release version, see rGREAT.

Client for GREAT Analysis

Bioconductor version: 3.15

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 "4.2") 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")

 

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

Details

biocViews Coverage, GO, GeneSetEnrichment, GenomeAnnotation, Pathways, Sequencing, Software, WholeGenome
Version 1.28.0
In Bioconductor since BioC 3.1 (R-3.2) (7.5 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_1.28.0.tar.gz
Windows Binary rGREAT_1.28.0.zip
macOS Binary (x86_64) rGREAT_1.28.0.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

Documentation »

Bioconductor

R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations: