recipe bioconductor-gseabenchmarker

Reproducible GSEA Benchmarking

Homepage

https://bioconductor.org/packages/3.13/bioc/html/GSEABenchmarkeR.html

License

Artistic-2.0

Recipe

/bioconductor-gseabenchmarker/meta.yaml

The GSEABenchmarkeR package implements an extendable framework for reproducible evaluation of set- and network-based methods for enrichment analysis of gene expression data. This includes support for the efficient execution of these methods on comprehensive real data compendia (microarray and RNA-seq) using parallel computation on standard workstations and institutional computer grids. Methods can then be assessed with respect to runtime, statistical significance, and relevance of the results for the phenotypes investigated.

package bioconductor-gseabenchmarker

Versions

1.12.0-0,  1.10.1-0,  1.10.0-0,  1.8.0-0,  1.6.0-1,  1.4.0-1,  1.2.0-0

Depends

• bioconductor-annotationdbi >=1.54.0,<1.55.0

• bioconductor-annotationhub >=3.0.0,<3.1.0

• bioconductor-biobase >=2.52.0,<2.53.0

• bioconductor-biocfilecache >=2.0.0,<2.1.0

• bioconductor-biocparallel >=1.26.0,<1.27.0

• bioconductor-edger >=3.34.0,<3.35.0

• bioconductor-enrichmentbrowser >=2.22.0,<2.23.0

• bioconductor-experimenthub >=2.0.0,<2.1.0

• bioconductor-keggandmetacoredzpathwaysgeo >=1.12.0,<1.13.0

• bioconductor-keggdzpathwaysgeo >=1.30.0,<1.31.0

• bioconductor-s4vectors >=0.30.0,<0.31.0

• bioconductor-summarizedexperiment >=1.22.0,<1.23.0

• r-base >=4.1,<4.2.0a0

Required By

Installation

With an activated Bioconda channel (see 2. Set up channels), install with:

conda install bioconductor-gseabenchmarker

and update with:

conda update bioconductor-gseabenchmarker

or use the docker container:

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

(see bioconductor-gseabenchmarker/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-gseabenchmarker/README.html)