recipe bioconductor-stroma4

Assign Properties to TNBC Patients

Homepage

https://bioconductor.org/packages/3.11/bioc/html/STROMA4.html

License

GPL-3

Recipe

/bioconductor-stroma4/meta.yaml

This package estimates four stromal properties identified in TNBC patients in each patient of a gene expression datasets. These stromal property assignments can be combined to subtype patients. These four stromal properties were identified in Triple negative breast cancer (TNBC) patients and represent the presence of different cells in the stroma: T-cells (T), B-cells (B), stromal infiltrating epithelial cells (E), and desmoplasia (D). Additionally this package can also be used to estimate generative properties for the Lehmann subtypes, an alternative TNBC subtyping scheme (PMID: 21633166).

package bioconductor-stroma4

Versions

1.12.0-0,  1.10.0-0,  1.8.0-1,  1.6.1-0,  1.6.0-0

Depends

• bioconductor-biobase >=2.48.0,<2.49.0

• bioconductor-biocparallel >=1.22.0,<1.23.0

• r-base >=4.0,<4.1.0a0

• r-cluster

• r-matrixstats

Required By

Installation

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

conda install bioconductor-stroma4

and update with:

conda update bioconductor-stroma4

or use the docker container:

docker pull quay.io/biocontainers/bioconductor-stroma4:<tag>

(see bioconductor-stroma4/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-stroma4/README.html)