To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("STROMA4")

In most cases, you don't need to download the package archive at all.

STROMA4

 

   

Assign Properties to TNBC Patients

Bioconductor version: Release (3.5)

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).

Author: Sadiq Saleh [aut, cre], Michael Hallett [aut]

Maintainer: Sadiq Saleh <sadiq.mehdiismailsaleh at mail.mcgill.ca>

Citation (from within R, enter citation("STROMA4")):

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("STROMA4")

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("STROMA4")

 

PDF R Script Using the STROMA4 package
PDF   Reference Manual

Details

biocViews BiomedicalInformatics, Classification, GeneExpression, Microarray, RNASeq, Software
Version 1.0.0
In Bioconductor since BioC 3.5 (R-3.4) (< 6 months)
License GPL-3
Depends R (>= 3.4), Biobase, BiocParallel, cluster, matrixStats, stats, graphics, utils
Imports
LinkingTo
Suggests breastCancerMAINZ
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Build Report  

Package Archives

Follow Installation instructions to use this package in your R session.

Package Source STROMA4_1.0.0.tar.gz
Windows Binary STROMA4_1.0.0.zip
Mac OS X 10.11 (El Capitan) STROMA4_1.0.0.tgz
Subversion source (username/password: readonly)
Git source https://github.com/Bioconductor-mirror/STROMA4/tree/release-3.5
Package Short Url http://bioconductor.org/packages/STROMA4/
Package Downloads Report Download Stats

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