recipe bioconductor-decoupler

decoupleR: Ensemble of computational methods to infer biological activities from omics data

Homepage:

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

License:

GPL-3 + file LICENSE

Recipe:

/bioconductor-decoupler/meta.yaml

Many methods allow us to extract biological activities from omics data using information from prior knowledge resources, reducing the dimensionality for increased statistical power and better interpretability. Here, we present decoupleR, a Bioconductor package containing different statistical methods to extract these signatures within a unified framework. decoupleR allows the user to flexibly test any method with any resource. It incorporates methods that take into account the sign and weight of network interactions. decoupleR can be used with any omic, as long as its features can be linked to a biological process based on prior knowledge. For example, in transcriptomics gene sets regulated by a transcription factor, or in phospho-proteomics phosphosites that are targeted by a kinase.

package bioconductor-decoupler

Versions:

2.4.0-0,  2.0.0-0,  1.0.0-0

Depends:

• r-base >=4.2,<4.3.0a0

• r-broom

• r-dplyr

• r-magrittr

• r-matrix

• r-purrr

• r-rlang

• r-stringr

• r-tibble

• r-tidyr

• r-tidyselect

• r-withr

Required By:

• bioconductor-progeny

Installation

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

conda install bioconductor-decoupler

and update with:

conda update bioconductor-decoupler

or use the docker container:

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

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

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