predictCMS: TNBC consensus molecular subtype prediction
In TNBC.CMS: TNBC.CMS: Prediction of TNBC Consensus Molecular Subtypes

Description Usage Arguments Value Examples

View source: R/predictCMS.R

Predicts the TNBC consensus molecular subtype of TNBC samples.

1	predictCMS(expr)

expr

A SummarizedExperiment object or a matrix containig gene expression profiles. If input is a SummarizedExperiment, the first element in the assays list should be a matrix of gene expression. Rows and columns of the gene expression matrix correspond to genes and samples, respectively (rownames must be to gene symbols).

A vector of assigned subtypes.

# Load gene expression profiles of TNBC samples
data(GSE25055)

# Predict consensus molecular subtypes of TNBC samples
prediction <- predictCMS(expr = GSE25055)
table(prediction)