ENCODExplorer

DOI: 10.18129/B9.bioc.ENCODExplorer    

This package is for version 3.12 of Bioconductor; for the stable, up-to-date release version, see ENCODExplorer.

A compilation of ENCODE metadata

Bioconductor version: 3.12

This package allows user to quickly access ENCODE project files metadata and give access to helper functions to query the ENCODE rest api, download ENCODE datasets and save the database in SQLite format.

Author: Charles Joly Beauparlant [aut, cre], Audrey Lemacon [aut], Eric Fournier [aut], Louis Gendron [ctb], Astrid-Louise Deschenes [ctb], Arnaud Droit [aut]

Maintainer: Charles Joly Beauparlant <charles.joly-beauparlant at crchul.ulaval.ca>

Installation

To install this package, start R (version "4.0") and enter:

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

BiocManager::install("ENCODExplorer")

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("ENCODExplorer")

 

HTML	R Script	ENCODExplorer
PDF		Reference Manual
Text		NEWS

Details

biocViews	DataImport, Infrastructure, Software
Version	2.16.0
In Bioconductor since	BioC 3.1 (R-3.2) (6 years)
License	Artistic-2.0
Depends	R (>= 3.6)
Imports	methods, tools, jsonlite, RCurl, tidyr, data.table, dplyr, stringr, stringi, utils, AnnotationHub, GenomicRanges, rtracklayer, S4Vectors, GenomeInfoDb, ENCODExplorerData
LinkingTo
Suggests	RUnit, BiocGenerics, knitr, curl, httr, shiny, shinythemes, DT
SystemRequirements
Enhances
URL
BugReports	https://github.com/CharlesJB/ENCODExplorer/issues
Depends On Me
Imports Me
Suggests Me	TSRchitect
Links To Me
Build Report

Package Archives

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

Source Package	ENCODExplorer_2.16.0.tar.gz
Windows Binary	ENCODExplorer_2.16.0.zip
macOS 10.13 (High Sierra)	ENCODExplorer_2.16.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/ENCODExplorer
Source Repository (Developer Access)	git clone [email protected]:packages/ENCODExplorer
Package Short Url	https://bioconductor.org/packages/ENCODExplorer/
Package Downloads Report	Download Stats