Hierarchy For Package org.biojava.bio.alignment

Package Hierarchies:

• All Packages

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