jprotein.data.dataformat.info
Class BlastPairwiseInfo

java.lang.Object
  extended by java.util.AbstractCollection
      extended by java.util.AbstractList
          extended by java.util.Vector
              extended by jprotein.data.datatype.Sequence
                  extended by jprotein.data.dataformat.info.BlastSequenceInfo
                      extended by jprotein.data.dataformat.info.BlastPairwiseInfo
All Implemented Interfaces:
java.io.Serializable, java.lang.Cloneable, java.lang.Iterable, java.util.Collection, java.util.List, java.util.RandomAccess

public class BlastPairwiseInfo
extends BlastSequenceInfo

See Also:
Serialized Form

Constructor Summary
BlastPairwiseInfo()
           
 
Method Summary
 Sequence getRefSequence()
           
 void setRefSequence(Sequence ref)
           
 
Methods inherited from class jprotein.data.dataformat.info.BlastSequenceInfo
allPreliminaryChecked, expectChecked, getEndOverlap, getEValue, getIdentity, getOverlapLength, getStartOverlap, identityChecked, overlaps, overlapStartChecked, setEndOverlap, setEValue, setIdentity, setOverlapLength, setStartOverlap
 
Methods inherited from class jprotein.data.datatype.Sequence
equals, getNonGappedPosition, getNonGappedSequenceLength, getResidue, getSequence, getSequenceLength, getSequenceName, isIdentical, setSequence, setSequenceName, toFasta, toString
 
Methods inherited from class java.util.Vector
add, add, addAll, addAll, addElement, capacity, clear, clone, contains, containsAll, copyInto, elementAt, elements, ensureCapacity, firstElement, get, hashCode, indexOf, indexOf, insertElementAt, isEmpty, lastElement, lastIndexOf, lastIndexOf, remove, remove, removeAll, removeAllElements, removeElement, removeElementAt, retainAll, set, setElementAt, setSize, size, subList, toArray, toArray, trimToSize
 
Methods inherited from class java.util.AbstractList
iterator, listIterator, listIterator
 
Methods inherited from class java.lang.Object
getClass, notify, notifyAll, wait, wait, wait
 
Methods inherited from interface java.util.List
iterator, listIterator, listIterator
 

Constructor Detail

BlastPairwiseInfo

public BlastPairwiseInfo()
Method Detail

getRefSequence

public Sequence getRefSequence()

setRefSequence

public void setRefSequence(Sequence ref)