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java.lang.Objectorg.vectorbase.gdav.beans.Alignment
public class Alignment
Alignment Javabean
DBConnection
Constructor Summary | |
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Alignment()
empty constructor |
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Alignment(java.lang.String newSpp,
java.lang.String newChr,
int newStart,
int newEnd,
int newStrand,
java.lang.String newCigar,
int newScore,
java.lang.String newMethod)
pass basic-info constructor |
Method Summary | |
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java.lang.String |
getChr()
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java.lang.String |
getCigar()
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int |
getEnd()
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java.util.List |
getHSPs()
use cigar line to split alignment into constituent high-scoring pairs |
java.lang.String |
getLocation()
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java.lang.String |
getMethod()
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int |
getScore()
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java.lang.String |
getSpp()
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int |
getStart()
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int |
getStrand()
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void |
setChr(java.lang.String newChr)
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void |
setCigar(java.lang.String newCigar)
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void |
setEnd(int newEnd)
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void |
setMethod(java.lang.String newMethod)
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void |
setScore(int newScore)
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void |
setSpp(java.lang.String newSpp)
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void |
setStart(int newStart)
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void |
setStrand(int newStrand)
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Methods inherited from class java.lang.Object |
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clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait |
Constructor Detail |
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public Alignment()
public Alignment(java.lang.String newSpp, java.lang.String newChr, int newStart, int newEnd, int newStrand, java.lang.String newCigar, int newScore, java.lang.String newMethod)
Method Detail |
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public void setMethod(java.lang.String newMethod)
public java.lang.String getMethod()
public void setSpp(java.lang.String newSpp)
public java.lang.String getSpp()
public void setChr(java.lang.String newChr)
public java.lang.String getChr()
public void setStart(int newStart)
public int getStart()
public void setEnd(int newEnd)
public int getEnd()
public void setStrand(int newStrand)
public int getStrand()
public void setCigar(java.lang.String newCigar)
public java.lang.String getCigar()
public void setScore(int newScore)
public int getScore()
public java.lang.String getLocation()
public java.util.List getHSPs()
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