Package: ExpressionAtlas 1.33.0

Pedro Madrigal

ExpressionAtlas: Download datasets from EMBL-EBI Expression Atlas

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.

Authors:Maria Keays [aut], Pedro Madrigal [cre]

ExpressionAtlas_1.33.0.tar.gz
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ExpressionAtlas_1.33.0.tgz(r-4.4-any)ExpressionAtlas_1.33.0.tgz(r-4.3-any)
ExpressionAtlas_1.33.0.tar.gz(r-4.5-noble)ExpressionAtlas_1.33.0.tar.gz(r-4.4-noble)
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ExpressionAtlas.pdf |ExpressionAtlas.html✨
ExpressionAtlas/json (API)
NEWS

# Install 'ExpressionAtlas' in R:

install.packages('ExpressionAtlas', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))

Datasets:

allExps - A SimpleList containing some dummy Expression Atlas datasets
atlasRes - A DataFrame listing some Expression Atlas experiments
rnaseqExps - A SimpleList containing a dummy RNA-seq Expression Atlas dataset

On BioConductor:ExpressionAtlas-1.33.0(bioc 3.20)ExpressionAtlas-1.32.0(bioc 3.19)

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

bioconductor-package

3 exports 0.91 score 60 dependencies 7 mentions

Last updated 2 months agofrom:630cf9bb0d

Exports:getAtlasData getAtlasExperiment searchAtlasExperiments

Dependencies:abind askpass base64enc Biobase BiocGenerics BiocManager BiocStyle bitops bookdown bslib cachem cli crayon curl DelayedArray digest evaluate fastmap fontawesome fs GenomeInfoDb GenomeInfoDbData GenomicRanges glue highr htmltools httr IRanges jquerylib jsonlite knitr lattice lifecycle limma Matrix MatrixGenerics matrixStats memoise mime openssl R6 rappdirs RCurl rlang rmarkdown S4Arrays S4Vectors sass SparseArray statmod SummarizedExperiment sys tinytex UCSC.utils xfun XML xml2 XVector yaml zlibbioc

ExpressionAtlas package vignette

Maria Keays

Rendered fromExpressionAtlas.Rmdusingknitr::rmarkdownon Jun 30 2024.

Last update: 2022-10-21
Started: 2016-02-22

Citation

Development and contributors

Readme and manuals

Help Manual

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