recipe bioconductor-expressionatlas

Download datasets from EMBL-EBI Expression Atlas

Homepage

https://bioconductor.org/packages/3.11/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

1.16.0-0, 1.14.0-0, 1.12.0-1, 1.10.0-0

Depends

• bioconductor-biobase >=2.48.0,<2.49.0

• bioconductor-limma >=3.44.0,<3.45.0

• bioconductor-s4vectors >=0.26.0,<0.27.0

• bioconductor-summarizedexperiment >=1.18.0,<1.19.0

• r-base >=4.0,<4.1.0a0

• r-httr

• r-xml

• r-xml2

Required By

Installation

With an activated Bioconda channel (see 2. 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>)

Link to this page

Render an badge with the following MarkDown:

[![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/bioconductor-expressionatlas/README.html)