recipe bioconductor-signaturesearch

Environment for Gene Expression Searching Combined with Functional Enrichment Analysis

Homepage

https://bioconductor.org/packages/3.14/bioc/html/signatureSearch.html

License

Artistic-2.0

Recipe

/bioconductor-signaturesearch/meta.yaml

This package implements algorithms and data structures for performing gene expression signature (GES) searches, and subsequently interpreting the results functionally with specialized enrichment methods.

package bioconductor-signaturesearch

Versions

1.8.2-0,  1.8.0-0,  1.6.1-0,  1.4.3-0,  1.4.0-0,  1.2.0-0,  1.0.0-0

Depends

• bioconductor-annotationdbi >=1.56.0,<1.57.0

• bioconductor-biocgenerics >=0.40.0,<0.41.0

• bioconductor-biocparallel >=1.28.0,<1.29.0

• bioconductor-clusterprofiler >=4.2.0,<4.3.0

• bioconductor-delayedarray >=0.20.0,<0.21.0

• bioconductor-dose >=3.20.0,<3.21.0

• bioconductor-experimenthub >=2.2.0,<2.3.0

• bioconductor-fgsea >=1.20.0,<1.21.0

• bioconductor-gseabase >=1.56.0,<1.57.0

• bioconductor-hdf5array >=1.22.0,<1.23.0

• bioconductor-qvalue >=2.26.0,<2.27.0

• bioconductor-reactome.db >=1.77.0,<1.78.0

• bioconductor-rhdf5 >=2.38.0,<2.39.0

• bioconductor-summarizedexperiment >=1.24.0,<1.25.0

• libblas >=3.8.0,<4.0a0

• libgcc-ng >=10.3.0

• liblapack >=3.8.0,<4.0a0

• libstdcxx-ng >=10.3.0

• r-base >=4.1,<4.2.0a0

• r-data.table

• r-dplyr

• r-fastmatch

• r-ggplot2

• r-magrittr

• r-matrix

• r-rcpp

• r-readr

• r-reshape2

• r-rsqlite

• r-scales

• r-visnetwork

Required By

• bioconductor-signaturesearchdata

Installation

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

conda install bioconductor-signaturesearch

and update with:

conda update bioconductor-signaturesearch

or use the docker container:

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

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