Hierarchy For Package org.biojava.bio.alignment

Package Hierarchies:

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Class Hierarchy

java.lang.Object
- org.biojava.utils.AbstractChangeable (implements org.biojava.utils.Changeable)
  - org.biojava.bio.symbol.AbstractSymbolList (implements org.biojava.bio.symbol.SymbolList)
    - org.biojava.bio.alignment.AbstractULAlignment (implements org.biojava.bio.alignment.UnequalLengthAlignment)
      - org.biojava.bio.alignment.FlexibleAlignment (implements org.biojava.bio.alignment.ARAlignment, org.biojava.bio.alignment.EditableAlignment)
    - org.biojava.bio.alignment.AbstractULAlignment.SubULAlignment (implements org.biojava.bio.alignment.UnequalLengthAlignment)
    - org.biojava.bio.alignment.SimpleAlignment (implements org.biojava.bio.alignment.Alignment, java.io.Serializable)
      - org.biojava.bio.alignment.AlignmentPair
- org.biojava.bio.alignment.AbstractULAlignment.LeftRightLocationComparator<T> (implements java.util.Comparator<T>)
- org.biojava.bio.alignment.Alignment.SymbolListIterator (implements java.util.Iterator<E>)
- org.biojava.bio.alignment.AlignmentAlgorithm
  - org.biojava.bio.alignment.NeedlemanWunsch
  - org.biojava.bio.alignment.SmithWaterman
- org.biojava.bio.alignment.SimpleAlignmentElement (implements org.biojava.bio.alignment.AlignmentElement)
- org.biojava.bio.alignment.SubstitutionMatrix (implements java.io.Serializable)
- java.lang.Throwable (implements java.io.Serializable)
  - java.lang.Exception
    - java.lang.RuntimeException
      - org.biojava.bio.BioRuntimeException
        
        org.biojava.bio.alignment.IllegalAlignmentEditException

Interface Hierarchy

org.biojava.bio.alignment.AlignmentElement
org.biojava.utils.Changeable
- org.biojava.bio.symbol.SymbolList
  - org.biojava.bio.alignment.Alignment
    - org.biojava.bio.alignment.ARAlignment
    - org.biojava.bio.alignment.UnequalLengthAlignment
org.biojava.bio.alignment.EditableAlignment
org.biojava.bio.alignment.QualitativeAlignment

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