bpp::DRASDRTreeLikelihoodData Member List

This is the complete list of members for bpp::DRASDRTreeLikelihoodData, 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::DRASDRTreeLikelihoodData	inlinevirtual
DRASDRTreeLikelihoodData(const TreeTemplate< Node > *tree, size_t nbClasses)	bpp::DRASDRTreeLikelihoodData	inline
DRASDRTreeLikelihoodData(const DRASDRTreeLikelihoodData &data)	bpp::DRASDRTreeLikelihoodData	inline
getAlphabet() const	bpp::AbstractTreeLikelihoodData	inlinevirtual
getArrayPosition(int parentId, int sonId, size_t currentPosition) const	bpp::DRASDRTreeLikelihoodData	inlinevirtual
getD2LikelihoodArray(int nodeId)	bpp::DRASDRTreeLikelihoodData	inline
getD2LikelihoodArray(int nodeId) const	bpp::DRASDRTreeLikelihoodData	inline
getDLikelihoodArray(int nodeId)	bpp::DRASDRTreeLikelihoodData	inline
getDLikelihoodArray(int nodeId) const	bpp::DRASDRTreeLikelihoodData	inline
getLeafData(int nodeId)	bpp::DRASDRTreeLikelihoodData	inline
getLeafData(int nodeId) const	bpp::DRASDRTreeLikelihoodData	inline
getLeafLikelihoods(int nodeId)	bpp::DRASDRTreeLikelihoodData	inline
getLeafLikelihoods(int nodeId) const	bpp::DRASDRTreeLikelihoodData	inline
getLikelihoodArray(int parentId, int neighborId)	bpp::DRASDRTreeLikelihoodData	inline
getLikelihoodArray(int parentId, int neighborId) const	bpp::DRASDRTreeLikelihoodData	inline
getLikelihoodArrays(int nodeId) const	bpp::DRASDRTreeLikelihoodData	inline
getLikelihoodArrays(int nodeId)	bpp::DRASDRTreeLikelihoodData	inline
getNodeData(int nodeId)	bpp::DRASDRTreeLikelihoodData	inlinevirtual
getNodeData(int nodeId) const	bpp::DRASDRTreeLikelihoodData	inlinevirtual
getNumberOfClasses() const	bpp::DRASDRTreeLikelihoodData	inline
getNumberOfDistinctSites() const	bpp::DRASDRTreeLikelihoodData	inlinevirtual
getNumberOfSites() const	bpp::DRASDRTreeLikelihoodData	inlinevirtual
getNumberOfStates() const	bpp::DRASDRTreeLikelihoodData	inlinevirtual
getRootArrayPosition(const size_t site) const	bpp::AbstractTreeLikelihoodData	inlinevirtual
getRootArrayPositions()	bpp::AbstractTreeLikelihoodData	inline
getRootArrayPositions() const	bpp::AbstractTreeLikelihoodData	inline
getRootLikelihoodArray()	bpp::DRASDRTreeLikelihoodData	inline
getRootLikelihoodArray() const	bpp::DRASDRTreeLikelihoodData	inline
getRootRateSiteLikelihoodArray()	bpp::DRASDRTreeLikelihoodData	inline
getRootRateSiteLikelihoodArray() const	bpp::DRASDRTreeLikelihoodData	inline
getRootSiteLikelihoodArray()	bpp::DRASDRTreeLikelihoodData	inline
getRootSiteLikelihoodArray() const	bpp::DRASDRTreeLikelihoodData	inline
getShrunkData() const	bpp::DRASDRTreeLikelihoodData	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::DRASDRTreeLikelihoodData
initLikelihoods(const Node *node, const SiteContainer &sites, const SubstitutionModel &model)	bpp::DRASDRTreeLikelihoodData	protected
leafData_	bpp::DRASDRTreeLikelihoodData	mutableprivate
nbClasses_	bpp::DRASDRTreeLikelihoodData	private
nbDistinctSites_	bpp::DRASDRTreeLikelihoodData	private
nbSites_	bpp::DRASDRTreeLikelihoodData	private
nbStates_	bpp::DRASDRTreeLikelihoodData	private
nodeData_	bpp::DRASDRTreeLikelihoodData	mutableprivate
operator=(const DRASDRTreeLikelihoodData &data)	bpp::DRASDRTreeLikelihoodData	inline
bpp::AbstractTreeLikelihoodData::operator=(const AbstractTreeLikelihoodData &atd)	bpp::AbstractTreeLikelihoodData	inline
reInit()	bpp::DRASDRTreeLikelihoodData
reInit(const Node *node)	bpp::DRASDRTreeLikelihoodData
rootLikelihoods_	bpp::DRASDRTreeLikelihoodData	mutableprivate
rootLikelihoodsS_	bpp::DRASDRTreeLikelihoodData	mutableprivate
rootLikelihoodsSR_	bpp::DRASDRTreeLikelihoodData	mutableprivate
rootPatternLinks_	bpp::AbstractTreeLikelihoodData	protected
rootWeights_	bpp::AbstractTreeLikelihoodData	protected
setTree(const TreeTemplate< Node > *tree)	bpp::DRASDRTreeLikelihoodData	inline
shrunkData_	bpp::DRASDRTreeLikelihoodData	private
tree_	bpp::AbstractTreeLikelihoodData	protected
TreeLikelihoodData()	bpp::TreeLikelihoodData	inline
~AbstractTreeLikelihoodData()	bpp::AbstractTreeLikelihoodData	inlinevirtual
~DRASDRTreeLikelihoodData()	bpp::DRASDRTreeLikelihoodData	inlinevirtual
~TreeLikelihoodData()	bpp::TreeLikelihoodData	inlinevirtual