matTraining: Gene expression matrix for training 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 78 breast cancer patients (training set data) from the Glas et al cohort (see the mammaPrintData package).

Usage

data(trainingData)

Format

The matTraining matrix contains normalized expression values for the 70 gene signature (rows) across 78 samples (columns). Group information (emph“bad” versus “good” prognosis) is shown in colnames(matTraining).

Details

This dataset corresponds to the breast cancer patients' cohort published by Glas and colleagues in BMC Genomics (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

matTesting

Examples

### Load gene expression data for the training set
data(trainingData)

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

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

### Show the first  10 sample names of the ``matTraining'' matrix
head(colnames(matTraining), n=10)

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