ENCODExplorer

DOI: 10.18129/B9.bioc.ENCODExplorer    

This package is deprecated. It will probably be removed from Bioconductor. Please refer to the package end-of-life guidelines for more information.

A compilation of ENCODE metadata

Bioconductor version: Release (3.14)

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>

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

Installation

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

PDF   Reference Manual

Details

biocViews DataImport, Infrastructure, Software
Version 2.20.0
In Bioconductor since BioC 3.1 (R-3.2) (6.5 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
Windows Binary
macOS 10.13 (High Sierra)
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 https://bioconductor.org/packages/ENCODExplorer/
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