bpp::BasicProbabilisticSequence Member List

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

AbstractCoreSequence(const std::string &name)	bpp::AbstractCoreSequence	inline
AbstractCoreSequence(const std::string &name, const Comments &comments)	bpp::AbstractCoreSequence	inline
AbstractCoreSequence()	bpp::AbstractCoreSequence	inline
AbstractCoreSequence(const AbstractCoreSequence &s)	bpp::AbstractCoreSequence	inline
AbstractCoreSequence(const CoreSequence &s)	bpp::AbstractCoreSequence	inline
bpp::addElement(const T &c)=0	bpp::CoreSymbolList< T >	pure virtual
bpp::addElement(size_t pos, const T &c)=0	bpp::CoreSymbolList< T >	pure virtual
bpp::BasicProbabilisticSymbolList::addElement(const std::vector< double > &element)	bpp::BasicProbabilisticSymbolList	virtual
bpp::BasicProbabilisticSymbolList::addElement(size_t pos, const std::vector< double > &element)	bpp::BasicProbabilisticSymbolList	virtual
alphabet_	bpp::BasicProbabilisticSymbolList	private
BasicProbabilisticSequence(const Alphabet *alpha)	bpp::BasicProbabilisticSequence
BasicProbabilisticSequence(const std::string &name, const Table< double > &sequence, const Alphabet *alpha)	bpp::BasicProbabilisticSequence
BasicProbabilisticSequence(const std::string &name, const Table< double > &sequence, const Comments &comments, const Alphabet *alpha)	bpp::BasicProbabilisticSequence
BasicProbabilisticSequence(const BasicProbabilisticSequence &s)	bpp::BasicProbabilisticSequence
BasicProbabilisticSymbolList(const Alphabet *alpha)	bpp::BasicProbabilisticSymbolList
BasicProbabilisticSymbolList(const DataTable &list, const Alphabet *alpha)	bpp::BasicProbabilisticSymbolList
BasicProbabilisticSymbolList(const ProbabilisticSymbolList &list)	bpp::BasicProbabilisticSymbolList
BasicProbabilisticSymbolList(const CruxSymbolList &list)	bpp::BasicProbabilisticSymbolList
BasicProbabilisticSymbolList(const BasicProbabilisticSymbolList &list)	bpp::BasicProbabilisticSymbolList
clearComments()	bpp::BasicProbabilisticSequence	inlinevirtual
clone() const	bpp::BasicProbabilisticSequence	inlinevirtual
Commentable()	bpp::Commentable	inline
Commentable(const Comments &comments)	bpp::Commentable	inline
Commentable(const Commentable &com)	bpp::Commentable	inline
comments_	bpp::Commentable	protected
content_	bpp::BasicProbabilisticSymbolList	protected
CoreSequence()	bpp::CoreSequence	inline
DataTable typedef	bpp::BasicProbabilisticSymbolList
bpp::deleteElement(size_t pos)=0	bpp::CruxSymbolList	pure virtual
bpp::BasicProbabilisticSymbolList::deleteElement(size_t pos)	bpp::BasicProbabilisticSymbolList	inlinevirtual
bpp::deleteElements(size_t pos, size_t len)=0	bpp::CruxSymbolList	pure virtual
bpp::BasicProbabilisticSymbolList::deleteElements(size_t pos, size_t len)	bpp::BasicProbabilisticSymbolList	inlinevirtual
bpp::getAlphabet() const =0	bpp::CruxSymbolList	pure virtual
bpp::BasicProbabilisticSymbolList::getAlphabet() const	bpp::BasicProbabilisticSymbolList	inlinevirtual
bpp::getComments() const =0	bpp::CoreSequence	pure virtual
bpp::AbstractCoreSequence::getComments() const	bpp::AbstractCoreSequence	inlinevirtual
getContent() const	bpp::BasicProbabilisticSequence	inlinevirtual
bpp::getElement(size_t pos) const =0	bpp::CoreSymbolList< T >	pure virtual
bpp::BasicProbabilisticSymbolList::getElement(size_t pos) const	bpp::BasicProbabilisticSymbolList	inlinevirtual
bpp::getName() const =0	bpp::CoreSequence	pure virtual
bpp::AbstractCoreSequence::getName() const	bpp::AbstractCoreSequence	inlinevirtual
bpp::getStateValueAt(size_t siteIndex, int state) const	bpp::CruxSymbolList	inlinevirtual
bpp::BasicProbabilisticSymbolList::getStateValueAt(size_t siteIndex, int state) const	bpp::BasicProbabilisticSymbolList	inlinevirtual
getTable() const	bpp::BasicProbabilisticSequence	inlinevirtual
bpp::getValue(size_t pos) const =0	bpp::CoreSymbolList< T >	pure virtual
bpp::BasicProbabilisticSymbolList::getValue(size_t pos) const	bpp::BasicProbabilisticSymbolList	inlinevirtual
name_	bpp::AbstractCoreSequence	private
bpp::operator()(size_t siteIndex, int state) const	bpp::CruxSymbolList	inlinevirtual
bpp::BasicProbabilisticSymbolList::operator()(size_t siteIndex, int state) const	bpp::BasicProbabilisticSymbolList	inlinevirtual
operator=(const BasicProbabilisticSequence &s)	bpp::BasicProbabilisticSequence
bpp::AbstractCoreSequence::operator=(const AbstractCoreSequence &s)	bpp::AbstractCoreSequence	inline
bpp::AbstractCoreSequence::operator=(const CoreSequence &s)	bpp::AbstractCoreSequence	inline
bpp::Commentable::operator=(const Commentable &com)	bpp::Commentable	inline
bpp::BasicProbabilisticSymbolList::operator=(const ProbabilisticSymbolList &list)	bpp::BasicProbabilisticSymbolList
bpp::BasicProbabilisticSymbolList::operator=(const BasicProbabilisticSymbolList &list)	bpp::BasicProbabilisticSymbolList
bpp::operator[](size_t pos) const =0	bpp::CoreSymbolList< T >	pure virtual
bpp::operator[](size_t pos)=0	bpp::CoreSymbolList< T >	pure virtual
bpp::BasicProbabilisticSymbolList::operator[](size_t pos) const	bpp::BasicProbabilisticSymbolList	inlinevirtual
bpp::BasicProbabilisticSymbolList::operator[](size_t pos)	bpp::BasicProbabilisticSymbolList	inlinevirtual
ProbabilisticSymbolList()	bpp::ProbabilisticSymbolList	inline
bpp::setComments(const Comments &comments)=0	bpp::CoreSequence	pure virtual
bpp::AbstractCoreSequence::setComments(const Comments &comments)	bpp::AbstractCoreSequence	inlinevirtual
setContent(const Table< double > &content)	bpp::BasicProbabilisticSequence	inline
bpp::ProbabilisticSequence::setContent(const std::vector< T > &list)=0	bpp::CoreSymbolList< T >	pure virtual
bpp::BasicProbabilisticSymbolList::setContent(const std::vector< std::vector< double > > &list)	bpp::BasicProbabilisticSymbolList	virtual
bpp::setElement(size_t pos, const T &c)=0	bpp::CoreSymbolList< T >	pure virtual
bpp::BasicProbabilisticSymbolList::setElement(size_t pos, const std::vector< double > &element)	bpp::BasicProbabilisticSymbolList	virtual
bpp::setName(const std::string &name)=0	bpp::CoreSequence	pure virtual
bpp::AbstractCoreSequence::setName(const std::string &name)	bpp::AbstractCoreSequence	inlinevirtual
setToSizeL(size_t newSize)	bpp::BasicProbabilisticSequence	inlinevirtual
setToSizeR(size_t newSize)	bpp::BasicProbabilisticSequence	inlinevirtual
bpp::shuffle()=0	bpp::CruxSymbolList	pure virtual
bpp::BasicProbabilisticSymbolList::shuffle()	bpp::BasicProbabilisticSymbolList	inlinevirtual
bpp::size() const =0	bpp::CruxSymbolList	pure virtual
bpp::BasicProbabilisticSymbolList::size() const	bpp::BasicProbabilisticSymbolList	inlinevirtual
bpp::toString() const =0	bpp::CruxSymbolList	pure virtual
bpp::BasicProbabilisticSymbolList::toString() const	bpp::BasicProbabilisticSymbolList	virtual
~AbstractCoreSequence()	bpp::AbstractCoreSequence	inlinevirtual
~BasicProbabilisticSequence()	bpp::BasicProbabilisticSequence	inlinevirtual
~BasicProbabilisticSymbolList()	bpp::BasicProbabilisticSymbolList	inlinevirtual
~Clonable()=default	bpp::Clonable	virtual
~Commentable()	bpp::Commentable	inlinevirtual
~CoreSequence()	bpp::CoreSequence	inlinevirtual
~CoreSequenceSymbolList()	bpp::CoreSequenceSymbolList< T >	inlinevirtual
bpp::~CoreSymbolList()	bpp::CoreSymbolList< T >	inlinevirtual
bpp::BasicProbabilisticSymbolList::~CoreSymbolList()	bpp::CoreSymbolList< std::vector< double > >	inlinevirtual
~CruxSymbolList()	bpp::CruxSymbolList	inlinevirtual
~ProbabilisticSequence()	bpp::ProbabilisticSequence	inlinevirtual
~ProbabilisticSymbolList()	bpp::ProbabilisticSymbolList	inlinevirtual