Package: ExpressionAtlas 1.35.0

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_1.35.0.tar.gz
ExpressionAtlas_1.35.0.zip(r-4.5)ExpressionAtlas_1.35.0.zip(r-4.4)ExpressionAtlas_1.35.0.zip(r-4.3)
ExpressionAtlas_1.35.0.tgz(r-4.4-any)ExpressionAtlas_1.35.0.tgz(r-4.3-any)
ExpressionAtlas_1.35.0.tar.gz(r-4.5-noble)ExpressionAtlas_1.35.0.tar.gz(r-4.4-noble)
ExpressionAtlas_1.35.0.tgz(r-4.4-emscripten)ExpressionAtlas_1.35.0.tgz(r-4.3-emscripten)
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'))

Peer review:

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.

expressiondataexperimentdatasequencingdatamicroarraydataarrayexpress

3.60 score 20 scripts 478 downloads 3 exports 60 dependencies

Last updated 23 days agofrom:08329fa171. Checks:OK: 3 NOTE: 4. Indexed: yes.

TargetResultDate
Doc / VignettesOKOct 30 2024
R-4.5-winOKOct 30 2024
R-4.5-linuxOKOct 30 2024
R-4.4-winNOTEOct 30 2024
R-4.4-macNOTEOct 31 2024
R-4.3-winNOTEOct 30 2024
R-4.3-macNOTEOct 31 2024

Exports:getAtlasDatagetAtlasExperimentsearchAtlasExperiments

Dependencies:abindaskpassbase64encBiobaseBiocGenericsBiocManagerBiocStylebitopsbookdownbslibcachemclicrayoncurlDelayedArraydigestevaluatefastmapfontawesomefsGenomeInfoDbGenomeInfoDbDataGenomicRangesgluehighrhtmltoolshttrIRangesjquerylibjsonliteknitrlatticelifecyclelimmaMatrixMatrixGenericsmatrixStatsmemoisemimeopensslR6rappdirsRCurlrlangrmarkdownS4ArraysS4VectorssassSparseArraystatmodSummarizedExperimentsystinytexUCSC.utilsxfunXMLxml2XVectoryamlzlibbioc

ExpressionAtlas package vignette

Maria Keays

Rendered fromExpressionAtlas.Rmdusingknitr::rmarkdownon Oct 30 2024.

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