bpp::DRASRTreeLikelihoodData Member List

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

AbstractTreeLikelihoodData(const TreeTemplate< Node > *tree)	bpp::AbstractTreeLikelihoodData	inline
AbstractTreeLikelihoodData(const AbstractTreeLikelihoodData &atd)	bpp::AbstractTreeLikelihoodData	inline
alphabet_	bpp::AbstractTreeLikelihoodData	protected
clone() const	bpp::DRASRTreeLikelihoodData	inlinevirtual
DRASRTreeLikelihoodData(const TreeTemplate< Node > *tree, size_t nbClasses, bool usePatterns=true)	bpp::DRASRTreeLikelihoodData	inline
DRASRTreeLikelihoodData(const DRASRTreeLikelihoodData &data)	bpp::DRASRTreeLikelihoodData	inline
getAlphabet() const	bpp::AbstractTreeLikelihoodData	inlinevirtual
getArrayPosition(int parentId, int sonId, size_t currentPosition) const	bpp::DRASRTreeLikelihoodData	inlinevirtual
getArrayPosition(int parentId, int sonId, size_t currentPosition)	bpp::DRASRTreeLikelihoodData	inline
getArrayPositions(int parentId, int sonId) const	bpp::DRASRTreeLikelihoodData	inline
getArrayPositions(int parentId, int sonId)	bpp::DRASRTreeLikelihoodData	inline
getD2LikelihoodArray(int nodeId)	bpp::DRASRTreeLikelihoodData	inline
getDLikelihoodArray(int nodeId)	bpp::DRASRTreeLikelihoodData	inline
getLikelihoodArray(int nodeId)	bpp::DRASRTreeLikelihoodData	inline
getNodeData(int nodeId)	bpp::DRASRTreeLikelihoodData	inlinevirtual
getNodeData(int nodeId) const	bpp::DRASRTreeLikelihoodData	inlinevirtual
getNumberOfClasses() const	bpp::DRASRTreeLikelihoodData	inline
getNumberOfDistinctSites() const	bpp::DRASRTreeLikelihoodData	inlinevirtual
getNumberOfSites() const	bpp::DRASRTreeLikelihoodData	inlinevirtual
getNumberOfStates() const	bpp::DRASRTreeLikelihoodData	inlinevirtual
getRootArrayPosition(size_t currentPosition) const	bpp::DRASRTreeLikelihoodData	inlinevirtual
getRootArrayPositions()	bpp::AbstractTreeLikelihoodData	inline
getRootArrayPositions() const	bpp::AbstractTreeLikelihoodData	inline
getTree() const	bpp::AbstractTreeLikelihoodData	inlinevirtual
getWeight(size_t pos) const	bpp::AbstractTreeLikelihoodData	inlinevirtual
getWeights() const	bpp::AbstractTreeLikelihoodData	inlinevirtual
initLikelihoods(const SiteContainer &sites, const SubstitutionModel &model)	bpp::DRASRTreeLikelihoodData
initLikelihoods(const Node *node, const SiteContainer &sequences, const SubstitutionModel &model)	bpp::DRASRTreeLikelihoodData	protectedvirtual
initLikelihoodsWithPatterns(const Node *node, const SiteContainer &sequences, const SubstitutionModel &model)	bpp::DRASRTreeLikelihoodData	protectedvirtual
nbClasses_	bpp::DRASRTreeLikelihoodData	private
nbDistinctSites_	bpp::DRASRTreeLikelihoodData	private
nbSites_	bpp::DRASRTreeLikelihoodData	private
nbStates_	bpp::DRASRTreeLikelihoodData	private
nodeData_	bpp::DRASRTreeLikelihoodData	mutableprivate
operator=(const DRASRTreeLikelihoodData &data)	bpp::DRASRTreeLikelihoodData	inline
bpp::AbstractTreeLikelihoodData::operator=(const AbstractTreeLikelihoodData &atd)	bpp::AbstractTreeLikelihoodData	inline
patternLinks_	bpp::DRASRTreeLikelihoodData	mutableprivate
rootPatternLinks_	bpp::AbstractTreeLikelihoodData	protected
rootWeights_	bpp::AbstractTreeLikelihoodData	protected
setTree(const TreeTemplate< Node > *tree)	bpp::DRASRTreeLikelihoodData	inline
shrunkData_	bpp::DRASRTreeLikelihoodData	private
tree_	bpp::AbstractTreeLikelihoodData	protected
TreeLikelihoodData()	bpp::TreeLikelihoodData	inline
usePatterns_	bpp::DRASRTreeLikelihoodData	private
~AbstractTreeLikelihoodData()	bpp::AbstractTreeLikelihoodData	inlinevirtual
~DRASRTreeLikelihoodData()	bpp::DRASRTreeLikelihoodData	inlinevirtual
~TreeLikelihoodData()	bpp::TreeLikelihoodData	inlinevirtual