ExpressionAtlas

DOI: 10.18129/B9.bioc.ExpressionAtlas    

Download datasets from EMBL-EBI Expression Atlas

Bioconductor version: Release (3.6)

This package is for searching for datasets in EMBL-EBI Expression Atlas, and downloading them into R for further analysis. Each Expression Atlas dataset is represented as a SimpleList object with one element per platform. Sequencing data is contained in a SummarizedExperiment object, while microarray data is contained in an ExpressionSet or MAList object.

Author: Maria Keays

Maintainer: Maria Keays <mkeays at ebi.ac.uk>

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("ExpressionAtlas")

Documentation

HTML	R Script	ExpressionAtlas
PDF		Reference Manual
Text		NEWS

Details

biocViews	ArrayExpress, ExperimentData, ExpressionData, MicroarrayData, SequencingData, Software
Version	1.6.0
In Bioconductor since	BioC 3.3 (R-3.3) (2 years)
License	GPL (>= 3)
Depends	R (>= 3.2.0), methods, Biobase, SummarizedExperiment, limma, S4Vectors, xml2
Imports	utils, XML, httr
LinkingTo
Suggests	knitr, testthat, rmarkdown
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me	Pi
Build Report

Package Archives

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

Source Package	ExpressionAtlas_1.6.0.tar.gz
Windows Binary	ExpressionAtlas_1.6.0.zip
Mac OS X 10.11 (El Capitan)	ExpressionAtlas_1.6.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/ExpressionAtlas
Package Short Url	http://bioconductor.org/packages/ExpressionAtlas/
Package Downloads Report	Download Stats