recipe bioconductor-signifinder

Implementations of transcriptional cancer signatures

Homepage:

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

License:

AGPL-3

Recipe:

/bioconductor-signifinder/meta.yaml

signifinder is an R package for computing and exploring a compendium of tumor signatures. It allows computing signatures scores providing the only gene expression values and returns a single-sample score. Currently, signifinder contains 46 distinct signatures collected from the literature.

package bioconductor-signifinder

Versions:

1.0.0-0

Depends:

• bioconductor-annotationdbi >=1.60.0,<1.61.0

• bioconductor-biocgenerics >=0.44.0,<0.45.0

• bioconductor-complexheatmap >=2.14.0,<2.15.0

• bioconductor-consensusov >=1.20.0,<1.21.0

• bioconductor-ensembldb >=2.22.0,<2.23.0

• bioconductor-gsva >=1.46.0,<1.47.0

• bioconductor-iranges >=2.32.0,<2.33.0

• bioconductor-org.hs.eg.db >=3.16.0,<3.17.0

• bioconductor-summarizedexperiment >=1.28.0,<1.29.0

• bioconductor-txdb.hsapiens.ucsc.hg19.knowngene >=3.2.0,<3.3.0

• bioconductor-txdb.hsapiens.ucsc.hg38.knowngene >=3.16.0,<3.17.0

• r-base >=4.2,<4.3.0a0

• r-dgeobj.utils

• r-dplyr

• r-ggplot2

• r-ggridges

• r-magrittr

• r-matrixstats

• r-maxstat

• r-openair

• r-patchwork

• r-rcolorbrewer

• r-survival

• r-survminer

• r-viridis

Required By:

Installation

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

conda install bioconductor-signifinder

and update with:

conda update bioconductor-signifinder

or use the docker container:

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

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