edu.mssm.crover.tools.blast
Class HitSummary

java.lang.Object
  |
  +--edu.mssm.crover.tools.blast.HitSummary

public class HitSummary

extends java.lang.Object

Stores the query sequence definition (queryId), the length of the query sequence (queryLen), the definition of the hit (subjId), the long definition of the hit (defLine), the percentage similarity between the query sequence and the hit HSP (percentId, between 0 and 1, not 0 and 100), the e-value of the hit HSP (eValue), and the length of the HSP (hitLength).

Constructor Summary

HitSummary()

Method Summary

java.lang.String	getDefaultDefLine()
double	getDefaultEValue()
int	getDefaultHitLength()
double	getDefaultPercentId()
java.lang.String	getDefaultQueryId()
int	getDefaultQueryLen()
double	getDefaultScore()
java.lang.String	getDefaultSubjId()
java.lang.String	getDefLine()
double	getEValue()
int	getHitLength()
double	getPercentId()
java.lang.String	getQueryId()
int	getQueryLen()
double	getScore()
java.lang.String	getSubjId()
void	setDefLine(java.lang.String defLine)
void	setEValue(double eValue)
void	setHitLength(int hitLength)
void	setPercentId(double percentId)
void	setQueryId(java.lang.String queryId)
void	setQueryLen(int queryLen)
void	setScore(double score)
void	setSubjId(java.lang.String subjId)

Methods inherited from class java.lang.Object

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

Constructor Detail

HitSummary

public HitSummary()

Method Detail

setQueryId

public void setQueryId(java.lang.String queryId)

getQueryId

public java.lang.String getQueryId()

getDefaultQueryId

public java.lang.String getDefaultQueryId()

setQueryLen

public void setQueryLen(int queryLen)

getQueryLen

public int getQueryLen()

getDefaultQueryLen

public int getDefaultQueryLen()

setSubjId

public void setSubjId(java.lang.String subjId)

getSubjId

public java.lang.String getSubjId()

getDefaultSubjId

public java.lang.String getDefaultSubjId()

setPercentId

public void setPercentId(double percentId)

getPercentId

public double getPercentId()

getDefaultPercentId

public double getDefaultPercentId()

setDefLine

public void setDefLine(java.lang.String defLine)

getDefLine

public java.lang.String getDefLine()

getDefaultDefLine

public java.lang.String getDefaultDefLine()

setEValue

public void setEValue(double eValue)

getEValue

public double getEValue()

getDefaultEValue

public double getDefaultEValue()

setHitLength

public void setHitLength(int hitLength)

getHitLength

public int getHitLength()

getDefaultHitLength

public int getDefaultHitLength()

setScore

public void setScore(double score)

getScore

public double getScore()

getDefaultScore

public double getDefaultScore()