ExpressionAtlas
Download datasets from EMBL-EBI Expression Atlas
Bioconductor version: 3.23 · Package version: 2.4.0
Other Bioconductor versions
devel is the development version; release is the current stable one.
3.24 (devel), 3.23 (release)
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.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("ExpressionAtlas")Details
| Maintainer | Anil Thanki <anilthanki@ebi.ac.uk> |
| Author | Maria Keays [aut] (ORCID: <https://orcid.org/0000-0003-2034-601X>), Pedro Madrigal [aut] (ORCID: <https://orcid.org/0000-0003-1959-8199>), Anil Thanki [cre] (ORCID: <https://orcid.org/0000-0002-8941-444X>) |
| License | GPL (>= 3) |
| Source branch | RELEASE_3_23 |
| Build report | Bioconductor build system, r-universe |
| biocViews | ArrayExpress, ExperimentData, ExpressionData, MicroarrayData, SequencingData, Software |
| Package Short Url | https://bioconductor.org/packages/ExpressionAtlas/ |
Citation
From within R, enter citation("ExpressionAtlas"):
Maria Keays, Pedro Madrigal. ExpressionAtlas: Download datasets from EMBL-EBI Expression Atlas. doi:10.18129/B9.bioc.ExpressionAtlas, R package version 2.4.0, https://bioconductor.org/packages/ExpressionAtlas.
Generated from the package metadata; it may differ from the package's own citation.
Documentation
Download
Follow the installation instructions to use this package in your R session.
| Source package | ExpressionAtlas_2.4.0.tar.gz |
| Windows binary (x86_64) | ExpressionAtlas_2.4.0.zip |
| macOS binary (arm64) | ExpressionAtlas_2.4.0.tgz |
| macOS binary (x86_64) | ExpressionAtlas_2.4.0.tgz |
Dependencies
Depends: R (>= 4.2.0), methods, Biobase, SummarizedExperiment, limma, S4Vectors, xml2, RCurl, jsonlite, BiocStyle
Reverse dependencies
Suggests Me (1): spatialHeatmap