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

Description Usage Arguments Value Author(s) References See Also Examples

View source: R/exportedFuncs.R

Description

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

Usage

1
2
3
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 [email protected], Luigi Marchionni [email protected], Wikum Dinalankara [email protected]

References

See switchBox for the references.

See Also

SWAP.GetKTSP.Result

Examples

 1
 2
 3
 4
 5
 6
 7
 8
 9
10
11
12
13
14
### 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. 1, 2018, 2:46 a.m.