ENCODExplorer

DOI: 10.18129/B9.bioc.ENCODExplorer    

This package is for version 3.8 of Bioconductor; for the stable, up-to-date release version, see ENCODExplorer.

A compilation of ENCODE metadata

Bioconductor version: 3.8

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 <charles.joly-beauparlant at crchul.ulaval.ca>, Audrey Lemacon <lemacon.audrey at ulaval.ca>, Louis Gendron <louisg.212 at gmail.com> Astrid-Louise Deschenes, <astrid-louise.deschenes at crchudequebec.ulaval.ca> and Arnaud Droit <arnaud.droit at crchudequebec.ulaval.ca >

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

Installation

To install this package, start R (version "3.5") 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	Data update
HTML	R Script	Database model
HTML	R Script	Introduction to ENCODExplorer
PDF		Reference Manual
Text		NEWS

Details

biocViews	DataImport, Infrastructure, Software
Version	2.8.0
In Bioconductor since	BioC 3.1 (R-3.2) (4 years)
License	Artistic-2.0
Depends	R (>= 3.3), shiny, DT, shinythemes
Imports	tools, jsonlite, parallel, RCurl, tidyr, data.table, dplyr, stringr, stringi
LinkingTo
Suggests	RUnit, BiocGenerics, knitr, curl, httr
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_2.8.0.tar.gz
Windows Binary	ENCODExplorer_2.8.0.zip
Mac OS X 10.11 (El Capitan)	ENCODExplorer_2.8.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/ENCODExplorer
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/ENCODExplorer
Package Short Url	http://bioconductor.org/packages/ENCODExplorer/
Package Downloads Report	Download Stats