genomicsnpanalyzer
Class IndelQualityFilter

java.lang.Object
  extended by genomicsnpanalyzer.IndelQualityFilter

public class IndelQualityFilter
extends java.lang.Object


Field Summary
 boolean consensusBetweenSelected
           
 double consensusBetweenValue1
           
 double consensusBetweenValue2
           
 boolean consensusGreaterSelected
           
 double consensusGreaterValue
           
 boolean consensusLessSelected
           
 double consensusLessValue
           
 boolean numreadsBetweenSelected
           
 double numreadsBetweenValue1
           
 double numreadsBetweenValue2
           
 boolean numreadsGreaterSelected
           
 double numreadsGreaterValue
           
 boolean numreadsLessSelected
           
 double numreadsLessValue
           
 boolean qualityBetweenSelected
           
 double qualityBetweenValue1
           
 double qualityBetweenValue2
           
 boolean qualityGreaterSelected
           
 double qualityGreaterValue
           
 boolean qualityLessSelected
           
 double qualityLessValue
           
 boolean reads4indelBetweenSelected
           
 double reads4indelBetweenValue1
           
 double reads4indelBetweenValue2
           
 boolean reads4indelGreaterSelected
           
 double reads4indelGreaterValue
           
 boolean reads4indelLessSelected
           
 double reads4indelLessValue
           
 boolean reads4refBetweenSelected
           
 double reads4refBetweenValue1
           
 double reads4refBetweenValue2
           
 boolean reads4refGreaterSelected
           
 double reads4refGreaterValue
           
 boolean reads4refLessSelected
           
 double reads4refLessValue
           
 boolean RMSBetweenSelected
           
 double RMSBetweenValue1
           
 double RMSBetweenValue2
           
 boolean RMSGreaterSelected
           
 double RMSGreaterValue
           
 boolean RMSLessSelected
           
 double RMSLessValue
           
 boolean SexHalfSwitch
           
 
Constructor Summary
IndelQualityFilter()
          Creates a new instance of SNPFilter
 
Method Summary
 boolean FilterCNVLociFunction(CNVLociFunction thisloci)
           
 boolean FilterCNVLociFunctionSubjectInf(CNVLociFunctionSubjectInf thisinf, byte bytechr)
           
 boolean isOn()
           
 void Reset()
           
 
Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait
 

Field Detail

numreadsGreaterSelected

public boolean numreadsGreaterSelected

numreadsGreaterValue

public double numreadsGreaterValue

numreadsLessSelected

public boolean numreadsLessSelected

numreadsLessValue

public double numreadsLessValue

numreadsBetweenSelected

public boolean numreadsBetweenSelected

numreadsBetweenValue1

public double numreadsBetweenValue1

numreadsBetweenValue2

public double numreadsBetweenValue2

consensusGreaterSelected

public boolean consensusGreaterSelected

consensusGreaterValue

public double consensusGreaterValue

consensusLessSelected

public boolean consensusLessSelected

consensusLessValue

public double consensusLessValue

consensusBetweenSelected

public boolean consensusBetweenSelected

consensusBetweenValue1

public double consensusBetweenValue1

consensusBetweenValue2

public double consensusBetweenValue2

RMSGreaterSelected

public boolean RMSGreaterSelected

RMSGreaterValue

public double RMSGreaterValue

RMSLessSelected

public boolean RMSLessSelected

RMSLessValue

public double RMSLessValue

RMSBetweenSelected

public boolean RMSBetweenSelected

RMSBetweenValue1

public double RMSBetweenValue1

RMSBetweenValue2

public double RMSBetweenValue2

reads4indelGreaterSelected

public boolean reads4indelGreaterSelected

reads4indelGreaterValue

public double reads4indelGreaterValue

reads4indelLessSelected

public boolean reads4indelLessSelected

reads4indelLessValue

public double reads4indelLessValue

reads4indelBetweenSelected

public boolean reads4indelBetweenSelected

reads4indelBetweenValue1

public double reads4indelBetweenValue1

reads4indelBetweenValue2

public double reads4indelBetweenValue2

reads4refGreaterSelected

public boolean reads4refGreaterSelected

reads4refGreaterValue

public double reads4refGreaterValue

reads4refLessSelected

public boolean reads4refLessSelected

reads4refLessValue

public double reads4refLessValue

reads4refBetweenSelected

public boolean reads4refBetweenSelected

reads4refBetweenValue1

public double reads4refBetweenValue1

reads4refBetweenValue2

public double reads4refBetweenValue2

qualityGreaterSelected

public boolean qualityGreaterSelected

qualityGreaterValue

public double qualityGreaterValue

qualityLessSelected

public boolean qualityLessSelected

qualityLessValue

public double qualityLessValue

qualityBetweenSelected

public boolean qualityBetweenSelected

qualityBetweenValue1

public double qualityBetweenValue1

qualityBetweenValue2

public double qualityBetweenValue2

SexHalfSwitch

public boolean SexHalfSwitch
Constructor Detail

IndelQualityFilter

public IndelQualityFilter()
Creates a new instance of SNPFilter

Method Detail

Reset

public void Reset()

isOn

public boolean isOn()

FilterCNVLociFunction

public boolean FilterCNVLociFunction(CNVLociFunction thisloci)

FilterCNVLociFunctionSubjectInf

public boolean FilterCNVLociFunctionSubjectInf(CNVLociFunctionSubjectInf thisinf,
                                               byte bytechr)