org.utgenome.core.cui
Class ReadStat.ReadAlignmentStat

java.lang.Object
  extended by org.utgenome.core.cui.ReadStat.ReadAlignmentStat
Enclosing class:
ReadStat

public static class ReadStat.ReadAlignmentStat
extends Object


Field Summary
 List<String> bamFile
           
 long numAlignedWithSW
           
 long numBothEndIsMapped
           
 long numBothEndIsUnmapped
           
 long numMapped
           
 long numOneEndIsMapped
           
 long numPairs
           
 long numRead
           
 long numRepeat
           
 long numUnique
           
 long numUnmapped
           
 
Constructor Summary
ReadStat.ReadAlignmentStat()
           
ReadStat.ReadAlignmentStat(String bamFile)
           
 
Method Summary
 void add(ReadStat.ReadAlignmentStat other)
           
 String getMappedRate()
           
 String getRepeatMappedRate()
           
 String getUniquelyMapppedRate()
           
 
Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait
 

Field Detail

bamFile

public List<String> bamFile

numRead

public long numRead

numMapped

public long numMapped

numUnmapped

public long numUnmapped

numUnique

public long numUnique

numRepeat

public long numRepeat

numAlignedWithSW

public long numAlignedWithSW

numPairs

public long numPairs

numBothEndIsMapped

public long numBothEndIsMapped

numOneEndIsMapped

public long numOneEndIsMapped

numBothEndIsUnmapped

public long numBothEndIsUnmapped
Constructor Detail

ReadStat.ReadAlignmentStat

public ReadStat.ReadAlignmentStat()

ReadStat.ReadAlignmentStat

public ReadStat.ReadAlignmentStat(String bamFile)
Method Detail

getMappedRate

public String getMappedRate()

getUniquelyMapppedRate

public String getUniquelyMapppedRate()

getRepeatMappedRate

public String getRepeatMappedRate()

add

public void add(ReadStat.ReadAlignmentStat other)


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