recipe bioconductor-geoquery

Get data from NCBI Gene Expression Omnibus (GEO)

Homepage:

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

License:

MIT

Recipe:

/bioconductor-geoquery/meta.yaml

Links:

biotools: geoquery

The NCBI Gene Expression Omnibus (GEO) is a public repository of microarray data. Given the rich and varied nature of this resource, it is only natural to want to apply BioConductor tools to these data. GEOquery is the bridge between GEO and BioConductor.

package bioconductor-geoquery

Versions:

2.66.0-0,  2.62.0-0,  2.60.0-0,  2.58.0-1,  2.58.0-0,  2.56.0-1,  2.56.0-0,  2.54.0-0,  2.52.0-1, 

2.66.0-0,  2.62.0-0,  2.60.0-0,  2.58.0-1,  2.58.0-0,  2.56.0-1,  2.56.0-0,  2.54.0-0,  2.52.0-1,  2.50.5-0,  2.50.0-0,  2.48.0-0,  2.46.3-0,  2.46.0-0,  2.42.0-0,  2.38.4-0,  2.36.0-0

Depends:

• bioconductor-biobase >=2.58.0,<2.59.0

• bioconductor-limma >=3.54.0,<3.55.0

• r-base >=4.2,<4.3.0a0

• r-curl

• r-data.table

• r-dplyr

• r-magrittr

• r-r.utils

• r-readr >=1.3.1

• r-tidyr

• r-xml2

Required By:

• bioconductor-dyebiasexamples

• bioconductor-dexma

• bioconductor-geometadb

• bioconductor-moonlightr

• bioconductor-sradb

• bioconductor-minfi

• bioconductor-phantasus

• bioconductor-bigmelon

• bioconductor-chipxpress

• bioconductor-beadarrayusecases

• bioconductor-gse103322

• bioconductor-crossmeta

• bioconductor-gse62944

• r-easydifferentialgenecoexpression

• bioconductor-healthycontrolspresencechecker

• bioconductor-geoexplorer

• bioconductor-conclus

• bioconductor-gse13015

• bioconductor-recount

• bioconductor-drugvsdisease

• bioconductor-coexnet

• bioconductor-scan.upc

• bioconductor-egad

• r-geneexpressionfromgeo

• bioconductor-epimix

• bioconductor-bioplex

Installation

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

conda install bioconductor-geoquery

and update with:

conda update bioconductor-geoquery

or use the docker container:

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

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

Download stats

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-geoquery/README.html)