recipe bioconductor-assign

Adaptive Signature Selection and InteGratioN (ASSIGN)

Homepage

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

License

MIT + file LICENSE

Recipe

/bioconductor-assign/meta.yaml

ASSIGN is a computational tool to evaluate the pathway deregulation/activation status in individual patient samples. ASSIGN employs a flexible Bayesian factor analysis approach that adapts predetermined pathway signatures derived either from knowledge-based literature or from perturbation experiments to the cell-/tissue-specific pathway signatures. The deregulation/activation level of each context-specific pathway is quantified to a score, which represents the extent to which a patient sample encompasses the pathway deregulation/activation signature.

package bioconductor-assign

Versions

1.28.0-0,  1.26.0-1,  1.26.0-0,  1.24.0-0,  1.22.0-0,  1.20.1-1,  1.18.0-0

Depends

• bioconductor-sva >=3.40.0,<3.41.0

• r-base >=4.1,<4.2.0a0

• r-ggplot2

• r-gplots

• r-msm

• r-rlab

• r-yaml

Required By

• bioconductor-tbsignatureprofiler

Installation

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

conda install bioconductor-assign

and update with:

conda update bioconductor-assign

or use the docker container:

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

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