bpp::ProbabilisticSiteContainer Member List

This is the complete list of members for bpp::ProbabilisticSiteContainer, including all inherited members.

addSite(std::shared_ptr< ProbabilisticSite > site, bool checkPosition=false)=0	bpp::ProbabilisticSiteContainer	pure virtual
AlignedValuesContainer()	bpp::AlignedValuesContainer	inline
clear()=0	bpp::SequencedValuesContainer	pure virtual
clone() const =0	bpp::ProbabilisticSiteContainer	pure virtual
createEmptyContainer() const =0	bpp::SequencedValuesContainer	pure virtual
deleteGeneralComments()=0	bpp::SequencedValuesContainer	pure virtual
deleteSites(size_t siteIndex, size_t length)=0	bpp::AlignedValuesContainer	pure virtual
getAlphabet() const =0	bpp::SequencedValuesContainer	pure virtual
getComments(size_t sequenceIndex) const =0	bpp::OrderedValuesContainer	pure virtual
getComments(const std::string &name) const=0	bpp::OrderedValuesContainer
bpp::SequencedValuesContainer::getComments(const std::string &name) const =0	bpp::SequencedValuesContainer	pure virtual
getGeneralComments() const =0	bpp::SequencedValuesContainer	pure virtual
getName(size_t sequenceIndex) const =0	bpp::OrderedValuesContainer	pure virtual
getNumberOfSequences() const =0	bpp::SequencedValuesContainer	pure virtual
getNumberOfSites() const =0	bpp::AlignedValuesContainer	pure virtual
getSequenceNames() const =0	bpp::SequencedValuesContainer	pure virtual
getSequencePosition(const std::string &name) const =0	bpp::OrderedValuesContainer	pure virtual
getSite(size_t siteIndex) const =0	bpp::ProbabilisticSiteContainer	pure virtual
getSite(size_t siteIndex)=0	bpp::ProbabilisticSiteContainer	pure virtual
getSitePositions() const =0	bpp::AlignedValuesContainer	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
getSymbolListSite(size_t siteIndex) const	bpp::ProbabilisticSiteContainer	inlinevirtual
getSymbolListSite(size_t siteIndex)	bpp::ProbabilisticSiteContainer	inlinevirtual
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
OrderedValuesContainer()	bpp::OrderedValuesContainer	inline
ProbabilisticSiteContainer()	bpp::ProbabilisticSiteContainer	inline
reindexSites()=0	bpp::AlignedValuesContainer	pure virtual
setComments(size_t sequenceIndex, const Comments &comments)=0	bpp::OrderedValuesContainer	pure virtual
setComments(const std::string &name, const Comments &comments)=0	bpp::OrderedValuesContainer
bpp::SequencedValuesContainer::setComments(const std::string &name, const Comments &comments)=0	bpp::SequencedValuesContainer	pure virtual
setGeneralComments(const Comments &comments)=0	bpp::SequencedValuesContainer	pure virtual
setSequenceNames(const std::vector< std::string > &names, bool checkNames)=0	bpp::SequencedValuesContainer	pure virtual
setSitePositions(Vint vPositions)=0	bpp::AlignedValuesContainer	pure virtual
toString(size_t sequenceIndex) const =0	bpp::OrderedValuesContainer	pure virtual
toString(const std::string &name) const=0	bpp::OrderedValuesContainer
bpp::SequencedValuesContainer::toString(const std::string &name) const =0	bpp::SequencedValuesContainer	pure virtual
~AlignedValuesContainer()	bpp::AlignedValuesContainer	inlinevirtual
~Clonable()=default	bpp::Clonable	virtual
~OrderedValuesContainer()	bpp::OrderedValuesContainer	inlinevirtual
~ProbabilisticSiteContainer()	bpp::ProbabilisticSiteContainer	inlinevirtual