recipe bioconductor-sspaths

ssPATHS: Single Sample PATHway Score

Homepage

https://bioconductor.org/packages/3.11/bioc/html/ssPATHS.html

License

MIT + file LICENSE

Recipe

/bioconductor-sspaths/meta.yaml

This package generates pathway scores from expression data for single samples after training on a reference cohort. The score is generated by taking the expression of a gene set (pathway) from a reference cohort and performing linear discriminant analysis to distinguish samples in the cohort that have the pathway augmented and not. The separating hyperplane is then used to score new samples.

package bioconductor-sspaths

Versions

1.2.0-0, 1.0.0-0

Depends

• bioconductor-summarizedexperiment >=1.18.0,<1.19.0

• r-base >=4.0,<4.1.0a0

• r-dml

• r-mess

• r-rocr

Required By

Installation

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

conda install bioconductor-sspaths

and update with:

conda update bioconductor-sspaths

or use the docker container:

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

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