edu.msu.cme.rdp.classifier.train.validation.crossvalidate

Class CrossValidate

java.lang.Object

edu.msu.cme.rdp.classifier.train.validation.crossvalidate.CrossValidate

public class CrossValidate
extends java.lang.Object

Constructor Summary

Constructors

Constructor and Description
CrossValidate()

Method Summary

Modifier and Type	Method and Description
java.lang.String	calErrorRate(java.util.ArrayList<java.util.HashMap> statusCountList) sensitivity = #TP / (#TP + #FN) specificity = #TN / (#TN + #FP)
java.util.ArrayList<java.util.HashMap>	runTest(java.io.File tax_file, java.io.File source_file, java.io.File out_file, java.lang.String rdmSelectedRank, float fraction, java.lang.Integer partialLength, boolean useSeed, int min_bootstrap_words) The method randomly selects a fraction of sequences from the source file as test set, used the remaining sequences from the source file as training set.

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Detail

CrossValidate

public CrossValidate()

Method Detail

runTest

public java.util.ArrayList<java.util.HashMap> runTest(java.io.File tax_file,
                                                      java.io.File source_file,
                                                      java.io.File out_file,
                                                      java.lang.String rdmSelectedRank,
                                                      float fraction,
                                                      java.lang.Integer partialLength,
                                                      boolean useSeed,
                                                      int min_bootstrap_words)
                                               throws java.io.IOException

The method randomly selects a fraction of sequences from the source file as test set, used the remaining sequences from the source file as training set.

Parameters:

tax_file -

source_file -

selectedTestSeqIDs -

Throws:

java.io.IOException

calErrorRate

public java.lang.String calErrorRate(java.util.ArrayList<java.util.HashMap> statusCountList)

sensitivity = #TP / (#TP + #FN) specificity = #TN / (#TN + #FP)

Parameters:

statusCountList -