bpp::PGMA Member List

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

AbstractAgglomerativeDistanceMethod(bool verbose=true, bool rootTree=false)	bpp::AbstractAgglomerativeDistanceMethod	inline
AbstractAgglomerativeDistanceMethod(const DistanceMatrix &matrix, bool verbose=true, bool rootTree=false)	bpp::AbstractAgglomerativeDistanceMethod	inline
AbstractAgglomerativeDistanceMethod(const AbstractAgglomerativeDistanceMethod &a)	bpp::AbstractAgglomerativeDistanceMethod	inline
AgglomerativeDistanceMethodInterface()	bpp::AgglomerativeDistanceMethodInterface	inline
clone() const	bpp::PGMA	inlinevirtual
computeBranchLengthsForPair(const std::vector< size_t > &pair)	bpp::PGMA	protectedvirtual
computeDistancesFromPair(const std::vector< size_t > &pair, const std::vector< double > &branchLengths, size_t pos)	bpp::PGMA	protectedvirtual
computeTree() override	bpp::AbstractAgglomerativeDistanceMethod	virtual
currentNodes_	bpp::AbstractAgglomerativeDistanceMethod	protected
DistanceMethodInterface()	bpp::DistanceMethodInterface	inline
finalStep(int idRoot)	bpp::PGMA	protectedvirtual
getBestPair()	bpp::PGMA	protectedvirtual
getLeafNode(int id, const std::string &name)	bpp::PGMA	protectedvirtual
getName() const	bpp::PGMA	inlinevirtual
getParentNode(int id, Node *son1, Node *son2)	bpp::PGMA	protectedvirtual
hasTree() const override	bpp::AbstractAgglomerativeDistanceMethod	inlinevirtual
isVerbose() const override	bpp::AbstractAgglomerativeDistanceMethod	inlinevirtual
isWeighted() const	bpp::PGMA	inline
matrix_	bpp::AbstractAgglomerativeDistanceMethod	protected
operator=(const AbstractAgglomerativeDistanceMethod &a)	bpp::AbstractAgglomerativeDistanceMethod	inline
PGMA(bool weighted=true)	bpp::PGMA	inline
PGMA(const DistanceMatrix &matrix, bool weighted=true, bool verbose=true)	bpp::PGMA	inline
rootTree_	bpp::AbstractAgglomerativeDistanceMethod	protected
setDistanceMatrix(const DistanceMatrix &matrix)	bpp::PGMA	inlinevirtual
setVerbose(bool yn) override	bpp::AbstractAgglomerativeDistanceMethod	inlinevirtual
setWeighted(bool weighted)	bpp::PGMA	inline
tree() const override	bpp::AbstractAgglomerativeDistanceMethod	inlinevirtual
tree_	bpp::AbstractAgglomerativeDistanceMethod	protected
verbose_	bpp::AbstractAgglomerativeDistanceMethod	protected
weighted_	bpp::PGMA	protected
~AbstractAgglomerativeDistanceMethod()	bpp::AbstractAgglomerativeDistanceMethod	inlinevirtual
~AgglomerativeDistanceMethodInterface()	bpp::AgglomerativeDistanceMethodInterface	inlinevirtual
~Clonable()=default	bpp::Clonable	virtual
~DistanceMethodInterface()	bpp::DistanceMethodInterface	inlinevirtual
~PGMA()	bpp::PGMA	inlinevirtual