SWAP.GetKTSP.TrainTestResults: Trains a kTSP on given training data and provides performance...

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

Description

Trains a kTSP on given training data and provides getkTSPResult output for both training and testing data.

Usage

SWAP.GetKTSP.TrainTestResults(trainMat, trainGroup, testMat, 
  testGroup, classes=NULL, predictions=FALSE, 
  decision_values=FALSE, ...)

Arguments

trainMat	is a matrix of data for training with rows being the features (such as gene names, if the matrix if gene expression data) and columns being the samples.
trainGroup	is a factor or a vector providing the phenotype class each training sample belongs to. It should correspond to the order of samples given by the columns of trainMat.
testMat	is a matrix of data for testing with rows being the features (such as gene names, if the matrix if gene expression data) and columns being the samples.
testGroup	is a factor or a vector providing the phenotype class each testing sample belongs to. It should correspond to the order of samples given by the columns of testMat.
classes	is a vetor of length 2 providing the two phenotype or class labels.
predictions	is a logical indicating whether to return the predictions or not.
decision_values	is a logical indicating whether to return the decision values or not.
...	any further arguments to be passed on for k-TSP training.

Value

A list with items:

classifier	The trained k-TSP classifier.
train	Training performance.
train	Testing performance.

Author(s)

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

References

See switchBox for the references.

See Also

SWAP.GetKTSP.Result

Examples

### Load gene expression data
data(trainingData)
data(testingData)

require(pROC)

### perform training and testing
result = SWAP.GetKTSP.TrainTestResults(matTraining, trainingGroup, 
  matTesting, testingGroup, featureNo=100)

### view results
result$train

result$test

switchBox documentation built on Nov. 8, 2020, 5:43 p.m.