| AbstractProbabilisticSequenceContainer(const Alphabet *alpha) | bpp::AbstractProbabilisticSequenceContainer | inline |
| AbstractProbabilisticSequenceContainer(const AbstractProbabilisticSequenceContainer &sc) | bpp::AbstractProbabilisticSequenceContainer | inline |
| AbstractValuesContainer(const Alphabet *alpha) | bpp::AbstractValuesContainer | inline |
| AbstractValuesContainer(const Comments &comments, const Alphabet *alpha) | bpp::AbstractValuesContainer | inline |
| AbstractValuesContainer(const AbstractValuesContainer &sc) | bpp::AbstractValuesContainer | inline |
| addSequence(const ProbabilisticSequence &sequence, bool checkName=true)=0 | bpp::AbstractProbabilisticSequenceContainer | pure virtual |
| addSequence(const Sequence &sequence, bool checkName=true)=0 | bpp::AbstractProbabilisticSequenceContainer | pure virtual |
| alphabet_ | bpp::AbstractValuesContainer | protected |
| clear()=0 | bpp::SequencedValuesContainer | pure virtual |
| clearComments() | bpp::Commentable | inline |
| clone() const =0 | bpp::OrderedValuesContainer | pure virtual |
| Commentable() | bpp::Commentable | inline |
| Commentable(const Comments &comments) | bpp::Commentable | inline |
| Commentable(const Commentable &com) | bpp::Commentable | inline |
| comments_ | bpp::Commentable | protected |
| createEmptyContainer() const =0 | bpp::SequencedValuesContainer | pure virtual |
| deleteGeneralComments() | bpp::AbstractProbabilisticSequenceContainer | inlinevirtual |
| getAlphabet() const | bpp::AbstractValuesContainer | inlinevirtual |
| getComments(const std::string &name) const | bpp::AbstractProbabilisticSequenceContainer | inlinevirtual |
| getComments(size_t sequenceIndex) const | bpp::AbstractProbabilisticSequenceContainer | inlinevirtual |
| bpp::OrderedValuesContainer::getComments(const std::string &name) const=0 | bpp::OrderedValuesContainer | |
| bpp::Commentable::getComments() const | bpp::Commentable | inline |
| getGeneralComments() const | bpp::AbstractProbabilisticSequenceContainer | inlinevirtual |
| getName(size_t sequenceIndex) const | bpp::AbstractProbabilisticSequenceContainer | inlinevirtual |
| getNumberOfSequences() const =0 | bpp::SequencedValuesContainer | pure virtual |
| getSequence(std::size_t i) const =0 | bpp::AbstractProbabilisticSequenceContainer | pure virtual |
| getSequence(const std::string &name) const =0 | bpp::AbstractProbabilisticSequenceContainer | pure virtual |
| getSequenceNames() const =0 | bpp::SequencedValuesContainer | pure virtual |
| getSequencePosition(const std::string &name) const =0 | bpp::OrderedValuesContainer | pure virtual |
| getStateValueAt(size_t siteIndex, size_t sequenceIndex, int state) const =0 | bpp::OrderedValuesContainer | pure virtual |
| getStateValueAt(size_t siteIndex, const std::string &sequenceName, int state) const=0 | bpp::OrderedValuesContainer | |
| bpp::SequencedValuesContainer::getStateValueAt(size_t siteIndex, const std::string &sequenceName, int state) const =0 | bpp::SequencedValuesContainer | pure virtual |
| hasSequence(const std::string &name) const =0 | bpp::SequencedValuesContainer | pure virtual |
| operator()(size_t siteIndex, size_t sequenceIndex, int state) const =0 | bpp::OrderedValuesContainer | pure virtual |
| bpp::SequencedValuesContainer::operator()(size_t siteIndex, const std::string &sequenceName, int state) const =0 | bpp::SequencedValuesContainer | pure virtual |
| operator=(const AbstractProbabilisticSequenceContainer &sc) | bpp::AbstractProbabilisticSequenceContainer | inline |
| bpp::AbstractValuesContainer::operator=(const AbstractValuesContainer &sc) | bpp::AbstractValuesContainer | inline |
| bpp::Commentable::operator=(const Commentable &com) | bpp::Commentable | inline |
| OrderedValuesContainer() | bpp::OrderedValuesContainer | inline |
| ProbabilisticSequenceContainer() | bpp::ProbabilisticSequenceContainer | inline |
| setComments(const std::string &name, const Comments &comments) | bpp::AbstractProbabilisticSequenceContainer | inlinevirtual |
| setComments(size_t sequenceIndex, const Comments &comments)=0 | bpp::AbstractProbabilisticSequenceContainer | pure virtual |
| bpp::OrderedValuesContainer::setComments(const std::string &name, const Comments &comments)=0 | bpp::OrderedValuesContainer | |
| bpp::Commentable::setComments(const Comments &comments) | bpp::Commentable | inline |
| setGeneralComments(const Comments &comments) | bpp::AbstractProbabilisticSequenceContainer | inlinevirtual |
| setSequence(const std::string &name, const ProbabilisticSequence &sequence, bool checkName)=0 | bpp::ProbabilisticSequenceContainer | pure virtual |
| setSequenceNames(const std::vector< std::string > &names, bool checkNames)=0 | bpp::SequencedValuesContainer | pure virtual |
| toString(const std::string &name) const | bpp::AbstractProbabilisticSequenceContainer | inlinevirtual |
| toString(size_t sequenceIndex) const | bpp::AbstractProbabilisticSequenceContainer | inlinevirtual |
| bpp::AbstractValuesContainer::toString(const std::string &name) const=0 | bpp::OrderedValuesContainer | |
| ~AbstractProbabilisticSequenceContainer() | bpp::AbstractProbabilisticSequenceContainer | inlinevirtual |
| ~AbstractValuesContainer() | bpp::AbstractValuesContainer | inlinevirtual |
| ~Clonable()=default | bpp::Clonable | virtual |
| ~Commentable() | bpp::Commentable | inlinevirtual |
| ~OrderedValuesContainer() | bpp::OrderedValuesContainer | inlinevirtual |
| ~ProbabilisticSequenceContainer() | bpp::ProbabilisticSequenceContainer | inlinevirtual |
1.9.1