bpp::DRTreeParsimonyScore Member List

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

AbstractTreeParsimonyScore(std::shared_ptr< TreeTemplate< Node > > tree, std::shared_ptr< const SiteContainerInterface > data, bool verbose, bool includeGaps)	bpp::AbstractTreeParsimonyScore
AbstractTreeParsimonyScore(std::shared_ptr< TreeTemplate< Node > > tree, std::shared_ptr< const SiteContainerInterface > data, std::shared_ptr< const StateMapInterface > statesMap, bool verbose)	bpp::AbstractTreeParsimonyScore
alphabet_	bpp::AbstractTreeParsimonyScore	private
clone() const override	bpp::DRTreeParsimonyScore	inlinevirtual
computeScores()	bpp::DRTreeParsimonyScore	protectedvirtual
computeScoresForNode(const DRTreeParsimonyNodeData &pData, std::vector< Bitset > &rBitsets, std::vector< unsigned int > &rScores)	bpp::DRTreeParsimonyScore	static
computeScoresFromArrays(const std::vector< const std::vector< Bitset > * > &iBitsets, const std::vector< const std::vector< unsigned int > * > &iScores, std::vector< Bitset > &oBitsets, std::vector< unsigned int > &oScores)	bpp::DRTreeParsimonyScore	static
computeScoresPostorder(const Node *)	bpp::DRTreeParsimonyScore	protectedvirtual
computeScoresPostorderForNode(const DRTreeParsimonyNodeData &pData, std::vector< Bitset > &rBitsets, std::vector< unsigned int > &rScores)	bpp::DRTreeParsimonyScore	static
computeScoresPreorder(const Node *)	bpp::DRTreeParsimonyScore	protectedvirtual
computeScoresPreorderForNode(const DRTreeParsimonyNodeData &pData, const Node *source, std::vector< Bitset > &rBitsets, std::vector< unsigned int > &rScores)	bpp::DRTreeParsimonyScore	static
computeSolution()	bpp::DRTreeParsimonyScore
data_	bpp::AbstractTreeParsimonyScore	private
doNNI(int nodeId) override	bpp::DRTreeParsimonyScore	virtual
DRTreeParsimonyScore(std::shared_ptr< TreeTemplate< Node > > tree, std::shared_ptr< const SiteContainerInterface > data, bool verbose=true, bool includeGaps=false)	bpp::DRTreeParsimonyScore
DRTreeParsimonyScore(std::shared_ptr< TreeTemplate< Node > > tree, std::shared_ptr< const SiteContainerInterface > data, std::shared_ptr< const StateMapInterface > statesMap, bool verbose=true)	bpp::DRTreeParsimonyScore
DRTreeParsimonyScore(const DRTreeParsimonyScore &tp)	bpp::DRTreeParsimonyScore
getNodeState(const Node *node)	bpp::DRTreeParsimonyScore
getScore() const override	bpp::DRTreeParsimonyScore	virtual
getScoreForSite(size_t site) const override	bpp::DRTreeParsimonyScore	virtual
getScorePerSite() const override	bpp::AbstractTreeParsimonyScore	virtual
getStateMap() const override	bpp::AbstractTreeParsimonyScore	inlinevirtual
getTopologyValue() const override	bpp::DRTreeParsimonyScore	inlinevirtual
getTreeTemplate() const	bpp::AbstractTreeParsimonyScore	inlinevirtual
getTreeTemplate_()	bpp::AbstractTreeParsimonyScore	inlineprotectedvirtual
init_(std::shared_ptr< const SiteContainerInterface > data, bool verbose)	bpp::DRTreeParsimonyScore	private
nbDistinctSites_	bpp::DRTreeParsimonyScore	private
nbStates_	bpp::AbstractTreeParsimonyScore	private
NNISearchable()	bpp::NNISearchable	inline
operator=(const DRTreeParsimonyScore &tp)	bpp::DRTreeParsimonyScore
PARSIMONY_SOLUTION_STATE	bpp::DRTreeParsimonyScore	static
parsimonyData_	bpp::DRTreeParsimonyScore	private
setNodeState(Node *node, size_t state)	bpp::DRTreeParsimonyScore
stateMap() const override	bpp::AbstractTreeParsimonyScore	inlinevirtual
statesMap_	bpp::AbstractTreeParsimonyScore	private
testNNI(int nodeId) const override	bpp::DRTreeParsimonyScore	virtual
topology() const override	bpp::DRTreeParsimonyScore	inlinevirtual
topologyChangePerformed(const TopologyChangeEvent &event)	bpp::TopologyListener	inlinevirtual
topologyChangeSuccessful(const TopologyChangeEvent &event) override	bpp::DRTreeParsimonyScore	inlinevirtual
topologyChangeTested(const TopologyChangeEvent &event) override	bpp::DRTreeParsimonyScore	inlinevirtual
TopologyListener()	bpp::TopologyListener	inline
tree() const override	bpp::AbstractTreeParsimonyScore	inlinevirtual
tree_()	bpp::AbstractTreeParsimonyScore	inlineprotectedvirtual
TreeParsimonyScoreInterface()	bpp::TreeParsimonyScoreInterface	inline
treePtr_	bpp::AbstractTreeParsimonyScore	private
treeTemplate() const	bpp::AbstractTreeParsimonyScore	inlinevirtual
treeTemplate_()	bpp::AbstractTreeParsimonyScore	inlineprotectedvirtual
~AbstractTreeParsimonyScore()	bpp::AbstractTreeParsimonyScore	inlinevirtual
~Clonable()=default	bpp::Clonable	virtual
~DRTreeParsimonyScore()	bpp::DRTreeParsimonyScore	virtual
~NNISearchable()	bpp::NNISearchable	inlinevirtual
~TopologyListener()	bpp::TopologyListener	inlinevirtual
~TreeParsimonyScoreInterface()	bpp::TreeParsimonyScoreInterface	inlinevirtual