Here is a list of all class members with links to the classes they belong to:

- a -

• AAChargeIndex() : bpp::AAChargeIndex
• AAChenGuHuangHydrophobicityIndex() : bpp::AAChenGuHuangHydrophobicityIndex
• AAChouFasmanAHelixIndex() : bpp::AAChouFasmanAHelixIndex
• AAChouFasmanBSheetIndex() : bpp::AAChouFasmanBSheetIndex
• AAChouFasmanTurnIndex() : bpp::AAChouFasmanTurnIndex
• AAIndex1Entry() : bpp::AAIndex1Entry
• AAIndex2Entry() : bpp::AAIndex2Entry
• AAMassIndex() : bpp::AAMassIndex
• AASEA1030Index() : bpp::AASEA1030Index
• AASEAInf10Index() : bpp::AASEAInf10Index
• AASEASup30Index() : bpp::AASEASup30Index
• AASurfaceIndex() : bpp::AASurfaceIndex
• AAVolumeIndex() : bpp::AAVolumeIndex
• abbr_ : bpp::ProteicAlphabetState
• AbstractAlphabet() : bpp::AbstractAlphabet
• AbstractIAlignment() : bpp::AbstractIAlignment
• AbstractISequence() : bpp::AbstractISequence
• AbstractOAlignment() : bpp::AbstractOAlignment
• AbstractOSequence() : bpp::AbstractOSequence
• AbstractReverseTransliterator() : bpp::AbstractReverseTransliterator
• AbstractSequenceContainer() : bpp::AbstractSequenceContainer
• AbstractSequenceContainerIterator() : bpp::AbstractSequenceContainerIterator
• AbstractSequencePositionIterator() : bpp::AbstractSequencePositionIterator
• AbstractSiteContainerIterator() : bpp::AbstractSiteContainerIterator
• AbstractTransliterator() : bpp::AbstractTransliterator
• addAnnotation() : bpp::SequenceWithAnnotation
• addElement() : bpp::SequenceWithQuality , bpp::SymbolList , bpp::BasicSymbolList , bpp::EdSymbolList
• addSequence() : bpp::VectorSiteContainer , bpp::AlignedSequenceContainer , bpp::CompressedVectorSiteContainer , bpp::MapSequenceContainer , bpp::SequenceContainer , bpp::VectorSequenceContainer , bpp::VectorSiteContainer
• addSite() : bpp::AlignedSequenceContainer , bpp::CompressedVectorSiteContainer , bpp::SiteContainer , bpp::VectorSiteContainer
• addSymbolListListener() : bpp::EdSymbolList
• afterSequenceChanged() : bpp::SequenceMask , bpp::SequenceQuality , bpp::SymbolListListener , bpp::EdSymbolList
• afterSequenceDeleted() : bpp::SequenceQuality , bpp::SequenceMask , bpp::SymbolListListener , bpp::EdSymbolList
• afterSequenceInserted() : bpp::SequenceQuality , bpp::SequenceMask , bpp::SymbolListListener , bpp::EdSymbolList
• afterSequenceSubstituted() : bpp::SequenceQuality , bpp::SequenceMask , bpp::SymbolListListener , bpp::EdSymbolList
• aHelix_ : bpp::AAChouFasmanAHelixIndex
• AlignedSequenceContainer() : bpp::AlignedSequenceContainer
• alignNW() : bpp::SiteContainerTools
• alnPos_ : bpp::SequenceWalker
• alpha_ : bpp::AAIndex1Entry , bpp::BLOSUM50 , bpp::DefaultNucleotideScore , bpp::GranthamAAChemicalDistance , bpp::MiyataAAChemicalDistance , bpp::AAIndex2Entry
• Alphabet() : bpp::Alphabet
• alphabet1_ : bpp::AlphabetMismatchException
• alphabet2_ : bpp::AlphabetMismatchException
• alphabet_ : bpp::StreamSequenceIterator , bpp::BasicSymbolList , bpp::BppOAlphabetIndex1Format , bpp::StreamSequenceWithQualityIterator , bpp::AbstractAlphabet , bpp::AbstractSequenceContainer , bpp::AlphabetException , bpp::SimpleScore , bpp::BppOAlphabetIndex2Format , bpp::EdSymbolList
• AlphabetException() : bpp::AlphabetException
• AlphabetIndex1() : bpp::AlphabetIndex1
• AlphabetIndex2() : bpp::AlphabetIndex2
• alphabetInheritsFrom() : bpp::AlphabetTools
• AlphabetMismatchException() : bpp::AlphabetMismatchException
• AlphabetState() : bpp::AlphabetState
• AlphabetTools() : bpp::AlphabetTools
• append() : bpp::SequenceWithAnnotation , bpp::Sequence , bpp::SequenceWithQuality , bpp::SequenceWithAnnotation , bpp::SequenceContainerTools , bpp::BasicSequence , bpp::SequenceWithQuality , bpp::SequenceWithAnnotation , bpp::BasicSequence , bpp::SequenceWithQuality , bpp::SequenceContainerTools , bpp::SequenceWithQuality , bpp::Sequence , bpp::BasicSequence
• appendAlignmentFromFile() : bpp::AbstractIAlignment
• appendAlignmentFromStream() : bpp::Clustal , bpp::Mase , bpp::Phylip , bpp::Fasta , bpp::DCSE , bpp::AbstractIAlignment , bpp::NexusIOSequence
• appendSequencesFromFile() : bpp::AbstractISequence
• appendSequencesFromStream() : bpp::GenBank , bpp::Mase , bpp::Fasta , bpp::AbstractISequence
• areSitesIdentical() : bpp::SiteTools
• areSynonymous() : bpp::GeneticCode