ExpressionAtlas: Download datasets from EMBL-EBI Expression Atlas
Version 1.4.0

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.

AuthorMaria Keays
Bioconductor views ArrayExpress ExperimentData ExpressionData MicroarrayData SequencingData
Date of publicationNone
MaintainerMaria Keays <mkeays@ebi.ac.uk>
LicenseGPL (>= 3)
Version1.4.0
Package repositoryView on Bioconductor
InstallationInstall the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("ExpressionAtlas")

Getting started

ExpressionAtlas package vignette

Popular man pages

allExps: A SimpleList containing some dummy Expression Atlas datasets
atlasRes: A DataFrame listing some Expression Atlas experiments
getAtlasData: Download data from multiple Expression Atlas experiments
getAtlasExperiment: Download data for an Expression Atlas experiment
rnaseqExps: A SimpleList containing a dummy RNA-seq Expression Atlas...
searchAtlasExperiments: Search for Expression Atlas experiments
See all...

All man pages Function index File listing

Man pages

allExps: A SimpleList containing some dummy Expression Atlas datasets
atlasRes: A DataFrame listing some Expression Atlas experiments
getAtlasData: Download data from multiple Expression Atlas experiments
getAtlasExperiment: Download data for an Expression Atlas experiment
rnaseqExps: A SimpleList containing a dummy RNA-seq Expression Atlas...
searchAtlasExperiments: Search for Expression Atlas experiments

Functions

allExps Man page
atlasRes Man page
getAtlasData Man page
getAtlasExperiment Man page
rnaseqExps Man page
searchAtlasExperiments Man page
getAtlasData Source code
getAtlasExperiment Source code
sValidExperimentAccession Source code
searchAtlasExperiments Source code

Files

DESCRIPTION
NAMESPACE
NEWS
R
R/functions.R
build
build/vignette.rds
data
data/allExps.rda
data/atlasRes.rda
data/rnaseqExps.rda
inst
inst/NEWS
inst/doc
inst/doc/ExpressionAtlas.R
inst/doc/ExpressionAtlas.Rmd
inst/doc/ExpressionAtlas.html
man
man/allExps.Rd
man/atlasRes.Rd
man/getAtlasData.Rd
man/getAtlasExperiment.Rd
man/rnaseqExps.Rd
man/searchAtlasExperiments.Rd
tests
tests/testthat
tests/testthat.R
tests/testthat/test_functions.R
vignettes
vignettes/ExpressionAtlas.Rmd
ExpressionAtlas documentation built on May 20, 2017, 11:02 p.m.

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