bpp::StochasticMapping Member List

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

clone() const	bpp::StochasticMapping	inline
ComputeConditionals()	bpp::StochasticMapping	private
computeFractionals()	bpp::StochasticMapping	private
computeStatesFrequencies(VVDouble &ancestralStatesFreuquencies, vector< shared_ptr< PhyloTree > > &mappings)	bpp::StochasticMapping	private
ConditionalProbabilities_	bpp::StochasticMapping	protected
fractionalProbabilities_	bpp::StochasticMapping	protected
generateAnalyticExpectedMapping(size_t divMethod=0)	bpp::StochasticMapping
generateExpectedMapping(std::vector< std::shared_ptr< PhyloTree > > &mappings, size_t divMethod=0)	bpp::StochasticMapping
generateStochasticMapping(std::vector< std::shared_ptr< PhyloTree > > &mappings)	bpp::StochasticMapping
getNodeState(const PhyloNode *node) const	bpp::StochasticMapping
giveNamesToInternalNodes(PhyloTree &tree)	bpp::StochasticMapping	private
likelihood_	bpp::StochasticMapping	protected
nodesCounter_	bpp::StochasticMapping	protected
numOfMappings_	bpp::StochasticMapping	protected
sampleAncestrals(shared_ptr< PhyloTree > mapping)	bpp::StochasticMapping	private
sampleMutationsGivenAncestrals(shared_ptr< PhyloTree > mapping)	bpp::StochasticMapping	private
sampleMutationsGivenAncestralsPerBranch(PhyloNode *son, size_t maxIterNum=10000)	bpp::StochasticMapping	private
sampleState(const VDouble &distibution)	bpp::StochasticMapping	private
setExpectedAncestrals(shared_ptr< PhyloTree > expectedMapping, VVDouble &posteriorProbabilities)	bpp::StochasticMapping	private
setLeafsStates(std::shared_ptr< PhyloTree > mapping)	bpp::StochasticMapping	private
setNodeState(PhyloNode *node, size_t state)	bpp::StochasticMapping	private
StochasticMapping(std::shared_ptr< LikelihoodCalculationSingleProcess > drl, size_t numOfMappings=10000)	bpp::StochasticMapping	explicit
StochasticMapping(const StochasticMapping &sm)	bpp::StochasticMapping	inline
tree_	bpp::StochasticMapping	protected
updateBranchByDwellingTimes(PhyloNode *node, VDouble &dwellingTimes, VVDouble &posteriorProbabilities, size_t divMethod=0)	bpp::StochasticMapping	private
updateBranchMapping(PhyloNode *son, const MutationPath &branchMapping)	bpp::StochasticMapping	private
~StochasticMapping()	bpp::StochasticMapping