matTesting: Gene expression matrix for test set data

In marchion/switchBox: Utilities to train and validate classifiers based on pair switching using the K-Top-Scoring-Pair (KTSP) algorithm

Description

A numerical matrix containing gene expression matrix for 70 genes and 307 breast cancer patients (test set data) from the Buyse et al cohort (see the mammaPrintData package).

Usage

data(testingData)

Format

The matTesting matrix contains normalized expression values for the 70 gene signature (rows) across 307 samples (columns). Group information (emph“bad” versus “good” prognosis) is shown in colnames(matTesting).

Details

This dataset corresponds to the breast cancer patients' cohort published by Buyse and colleagues in JNCI (2006). The gene expression matrix was obtained from the mammaPrintData package as described by Marchionni and colleagues in BMC Genomics (2013).

Author(s)

Bahman Afsari [e-mail], Luigi Marchionni [e-mail]

References

See switchBox for the references.

See Also

matTraining

Examples

### Load gene expression data for the test set
data(testingData)

### Show the class of the ``matTesting'' object
class(matTesting)

### Show the dimentions of the ``matTesting'' matrix
dim(matTesting)

### Show the first  10 sample names of the ``matTest'' matrix
head(colnames(matTesting), n=10)
testingGroup[1:10]

marchion/switchBox documentation built on May 9, 2019, 4:07 p.m.