Class Hierarchy

This inheritance list is sorted roughly, but not completely, alphabetically:

• Align
• AlignEntry
• AlignHandler
  • AlignOverlap
  • AlignStartOverlap
• AlignOverlap::AlignSegment
• Alphabet
  • DnaAlphabet
  • ProteinAlphabet
• AlignOverlap::AlternativeSegment
• CheckpointDriver
  • DemoCheckpointDriver
  • PartitionWorkspace
  • ViterbiWorkspace
• DRand48
• DynCell< TYPE >
• DynCellMoments< TYPE, N >
• ExceptionBase
  • Align::GapsAlignedError
  • Alphabet::InvalidCharacter
  • Alphabet::InvalidCharacterCode
  • Alphabet::MatchError
  • NotEnoughMemory
  • Sequence::ParseError
• PartitionWorkspace::ForwardBackwardInfo
• Frequencies
• OptCell
• Pair
• PartitionDriverBase
  • DriverFirstMoment
  • DriverLocalBound
  • DriverPosterDecode
  • DriverPosterProb
  • DriverSampling
• PartitionWorkspace::RowInfo
• ScoreMatrix
  • ProteinScoring
• Sequence
  • DnaSequence
  • ProteinSequence
• PartitionWorkspace::Transition
• vector
  • Workspace< DynCell< xdouble > >
    • PartitionWorkspace
  • Workspace< OptCell >
    • ViterbiWorkspace
• Weight
  • BoltzmannWeight
  • HmmWeight
• Workspace< CELL >
• xdouble