recipe bioconductor-expressionatlas

Download datasets from EMBL-EBI Expression Atlas

Homepage:

https://bioconductor.org/packages/3.16/bioc/html/ExpressionAtlas.html

License:

GPL (>= 3)

Recipe:

/bioconductor-expressionatlas/meta.yaml

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.

package bioconductor-expressionatlas

Versions:

1.26.0-0,  1.22.0-0,  1.20.0-0,  1.18.0-1,  1.18.0-0,  1.16.0-0,  1.14.0-0,  1.12.0-1,  1.10.0-0

Depends:

• bioconductor-biobase >=2.58.0,<2.59.0

• bioconductor-biocstyle >=2.26.0,<2.27.0

• bioconductor-limma >=3.54.0,<3.55.0

• bioconductor-s4vectors >=0.36.0,<0.37.0

• bioconductor-summarizedexperiment >=1.28.0,<1.29.0

• r-base >=4.2,<4.3.0a0

• r-httr

• r-jsonlite

• r-rcurl

• r-xml

• r-xml2

Required By:

Installation

With an activated Bioconda channel (see set-up-channels), install with:

conda install bioconductor-expressionatlas

and update with:

conda update bioconductor-expressionatlas

or use the docker container:

docker pull quay.io/biocontainers/bioconductor-expressionatlas:<tag>

(see bioconductor-expressionatlas/tags for valid values for <tag>)

Download stats

Link to this page

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