bpp::GivenDataSubstitutionProcessSiteSimulator Member List

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

alphabet() const override	bpp::SimpleSubstitutionProcessSiteSimulator	inlinevirtual
calcul_	bpp::GivenDataSubstitutionProcessSiteSimulator	private
clone() const override	bpp::GivenDataSubstitutionProcessSiteSimulator	inlinevirtual
continuousRates_	bpp::SimpleSubstitutionProcessSiteSimulator	protected
DetailedSiteSimulatorInterface()	bpp::DetailedSiteSimulatorInterface	inline
dSimulateSite() const override	bpp::SimpleSubstitutionProcessSiteSimulator	virtual
dSimulateSite(size_t rateClass) const override	bpp::SimpleSubstitutionProcessSiteSimulator	virtual
dSimulateSite(double rate) const override	bpp::SimpleSubstitutionProcessSiteSimulator	virtual
dSimulateSite(size_t ancestralStateIndex, double rate) const override	bpp::SimpleSubstitutionProcessSiteSimulator	virtual
enableContinuousRates(bool yn)	bpp::SimpleSubstitutionProcessSiteSimulator	inline
evolveInternal(std::shared_ptr< SimProcessNode > node, size_t rateClass, SiteSimulationResult *ssr=nullptr) const	bpp::SimpleSubstitutionProcessSiteSimulator	protected
evolveInternal(std::shared_ptr< SimProcessNode > node, double rate, SiteSimulationResult *ssr=nullptr) const	bpp::SimpleSubstitutionProcessSiteSimulator	protected
getAlphabet() const override	bpp::SimpleSubstitutionProcessSiteSimulator	inlinevirtual
getSequenceNames() const override	bpp::SimpleSubstitutionProcessSiteSimulator	inlinevirtual
getSubstitutionProcess() const	bpp::SimpleSubstitutionProcessSiteSimulator	inline
getTree() const	bpp::SimpleSubstitutionProcessSiteSimulator	inline
GivenDataSubstitutionProcessSiteSimulator(std::shared_ptr< LikelihoodCalculationSingleProcess > calcul, size_t pos, bool shrunked=false)	bpp::GivenDataSubstitutionProcessSiteSimulator	inline
GivenDataSubstitutionProcessSiteSimulator(const GivenDataSubstitutionProcessSiteSimulator &nhss)	bpp::GivenDataSubstitutionProcessSiteSimulator	inline
init() override	bpp::GivenDataSubstitutionProcessSiteSimulator	privatevirtual
nbClasses_	bpp::SimpleSubstitutionProcessSiteSimulator	protected
nbNodes_	bpp::SimpleSubstitutionProcessSiteSimulator	protected
nbStates_	bpp::SimpleSubstitutionProcessSiteSimulator	protected
operator=(const GivenDataSubstitutionProcessSiteSimulator &nhss)	bpp::GivenDataSubstitutionProcessSiteSimulator	inline
bpp::SimpleSubstitutionProcessSiteSimulator::operator=(const SimpleSubstitutionProcessSiteSimulator &nhss)	bpp::SimpleSubstitutionProcessSiteSimulator	inline
outputInternalSites(bool yn) override	bpp::SimpleSubstitutionProcessSiteSimulator	virtual
outputInternalSites_	bpp::SimpleSubstitutionProcessSiteSimulator	protected
phyloTree_	bpp::SimpleSubstitutionProcessSiteSimulator	protected
pos_	bpp::GivenDataSubstitutionProcessSiteSimulator	private
process_	bpp::SimpleSubstitutionProcessSiteSimulator	protected
qRates_	bpp::SimpleSubstitutionProcessSiteSimulator	protected
qRoots_	bpp::SimpleSubstitutionProcessSiteSimulator	protected
seqIndexes_	bpp::SimpleSubstitutionProcessSiteSimulator	protected
seqNames_	bpp::SimpleSubstitutionProcessSiteSimulator	protected
SimpleSubstitutionProcessSiteSimulator(std::shared_ptr< const SubstitutionProcessInterface > process)	bpp::SimpleSubstitutionProcessSiteSimulator
SimpleSubstitutionProcessSiteSimulator(const SimpleSubstitutionProcessSiteSimulator &nhss)	bpp::SimpleSubstitutionProcessSiteSimulator	inline
simulateSite() const override	bpp::SimpleSubstitutionProcessSiteSimulator	virtual
simulateSite(size_t rateClass) const override	bpp::SimpleSubstitutionProcessSiteSimulator	virtual
simulateSite(double rate) const override	bpp::SimpleSubstitutionProcessSiteSimulator	virtual
simulateSite(size_t ancestralStateIndex, double rate) const override	bpp::SimpleSubstitutionProcessSiteSimulator	virtual
SiteSimulatorInterface()	bpp::SiteSimulatorInterface	inline
speciesNodes_	bpp::SimpleSubstitutionProcessSiteSimulator	mutableprotected
tree_	bpp::SimpleSubstitutionProcessSiteSimulator	protected
~Clonable()=default	bpp::Clonable	virtual
~DetailedSiteSimulatorInterface()	bpp::DetailedSiteSimulatorInterface	inlinevirtual
~SimpleSubstitutionProcessSiteSimulator()	bpp::SimpleSubstitutionProcessSiteSimulator	inlinevirtual
~SiteSimulatorInterface()	bpp::SiteSimulatorInterface	inlinevirtual