Package GNormPluslib

Class GNR

java.lang.Object

GNormPluslib.GNR

public class GNR
extends Object

Constructor Summary

Constructors

Constructor	Description
GNR(GNPProcessingData data)

Method Summary

Modifier and Type	Method	Description
void	Ab3P(String Filename, String FilenameAbb, String TrainTest)
void	CRF_learn(String model, String FilenameData)
void	CRF_test(String model, String FilenameData, String FilenameOutput)
void	CRF_test(String model, String FilenameData, String FilenameOutput, String top3)
void	FeatureExtraction(String FilenameData, String FilenameLoca, String TrainTest)
void	LoadInputFile(String Filename, String FilenameAbb, String TrainTest)
void	PostProcessing(String Filename, String FilenameBioC)
void	ReadCRFresult(String Filename, String FilenameLoca, String FilenameOutput, String FilenameBioC)
void	ReadCRFresult(String Filename, String FilenameLoca, String FilenameOutput, String FilenameBioC, double threshold, double threshold_GeneType)

Methods inherited from class java.lang.Object

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

Constructor Detail

GNR

public GNR(GNPProcessingData data)

Method Detail

Ab3P

public void Ab3P(String Filename,
                 String FilenameAbb,
                 String TrainTest)
          throws XMLStreamException,
                 IOException

Throws:

XMLStreamException

IOException

LoadInputFile

public void LoadInputFile(String Filename,
                          String FilenameAbb,
                          String TrainTest)
                   throws XMLStreamException,
                          IOException

Throws:

XMLStreamException

IOException

FeatureExtraction

public void FeatureExtraction(String FilenameData,
                              String FilenameLoca,
                              String TrainTest)
                       throws XMLStreamException

Throws:

XMLStreamException

CRF_test

public void CRF_test(String model,
                     String FilenameData,
                     String FilenameOutput)
              throws IOException

Throws:

IOException

CRF_test

public void CRF_test(String model,
                     String FilenameData,
                     String FilenameOutput,
                     String top3)
              throws IOException

Throws:

IOException

CRF_learn

public void CRF_learn(String model,
                      String FilenameData)
               throws IOException

Throws:

IOException

ReadCRFresult

public void ReadCRFresult(String Filename,
                          String FilenameLoca,
                          String FilenameOutput,
                          String FilenameBioC)
                   throws XMLStreamException,
                          IOException

Throws:

XMLStreamException

IOException

ReadCRFresult

public void ReadCRFresult(String Filename,
                          String FilenameLoca,
                          String FilenameOutput,
                          String FilenameBioC,
                          double threshold,
                          double threshold_GeneType)
                   throws XMLStreamException,
                          IOException

Throws:

XMLStreamException

IOException

PostProcessing

public void PostProcessing(String Filename,
                           String FilenameBioC)
                    throws XMLStreamException,
                           IOException

Throws:

XMLStreamException

IOException