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ExpressionAtlas
This is thereleased version of ExpressionAtlas; for the devel version, seeExpressionAtlas.
Download datasets from EMBL-EBI Expression Atlas
Bioconductor version: Release (3.22)
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 [aut]
ORCID: 0000-0003-2034-601X, Pedro Madrigal [aut] ORCID: 0000-0003-1959-8199, Anil Thanki [cre] ORCID: 0000-0002-8941-444X
Maintainer: Anil Thanki <anilthanki at ebi.ac.uk>
citation("ExpressionAtlas")):Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager")BiocManager::install("ExpressionAtlas")For older versions of R, please refer to the appropriateBioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("ExpressionAtlas")| ExpressionAtlas | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | ArrayExpress,ExperimentData,ExpressionData,MicroarrayData,SequencingData,Software |
| Version | 2.2.0 |
| In Bioconductor since | BioC 3.3 (R-3.3) (9.5 years) |
| License | GPL (>= 3) |
| Depends | R (>= 4.2.0), methods,Biobase,SummarizedExperiment,limma,S4Vectors,xml2,RCurl,jsonlite,BiocStyle |
| Imports | utils,XML,httr |
| System Requirements | |
| URL |
See More
| Suggests | knitr,testthat,rmarkdown |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
FollowInstallation instructions to use this package in your R session.
| Source Package | ExpressionAtlas_2.2.0.tar.gz |
| Windows Binary (x86_64) | ExpressionAtlas_2.2.0.zip |
| macOS Binary (x86_64) | ExpressionAtlas_2.2.0.tgz |
| macOS Binary (arm64) | ExpressionAtlas_2.2.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/ExpressionAtlas |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/ExpressionAtlas |
| Bioc Package Browser | https://code.bioconductor.org/browse/ExpressionAtlas/ |
| Package Short Url | https://bioconductor.org/packages/ExpressionAtlas/ |
| Package Downloads Report | Download Stats |