Here is a list of all class members with links to the classes they belong to:

- n -

• N : bpp::TreeTools::Moments_
• n_ : bpp::PseudoNewtonOptimizer
• NaiveSubstitutionCount() : bpp::NaiveSubstitutionCount
• name : bpp::Nhx::Property
• name_ : bpp::LLG08_EX2::EmbeddedModel , bpp::LLG08_EX3::EmbeddedModel , bpp::AbstractFrequenciesSet , bpp::LLG08_UL2::EmbeddedModel , bpp::LLG08_UL3::EmbeddedModel , bpp::LGL08_CAT::EmbeddedModel , bpp::Node , bpp::TreeTemplate< N > , bpp::LLG08_EHO::EmbeddedModel
• names_ : bpp::SitePatterns
• NaNListener() : bpp::NaNListener
• nbBranches_ : bpp::AbstractSubstitutionMapping
• nbCategories_ : bpp::CategorySubstitutionRegister
• nbClasses_ : bpp::TwoTreeLikelihood , bpp::AbstractHomogeneousTreeLikelihood , bpp::AbstractNonHomogeneousTreeLikelihood , bpp::DRASDRTreeLikelihoodData , bpp::DRASRTreeLikelihoodData , bpp::MarginalAncestralStateReconstruction , bpp::BranchLikelihood , bpp::RateDistributionFactory , bpp::NonHomogeneousSequenceSimulator
• nbDistinctSites_ : bpp::DRASRTreeLikelihoodData , bpp::MarginalAncestralStateReconstruction , bpp::DRTreeParsimonyData , bpp::DRTreeParsimonyScore , bpp::TwoTreeLikelihood , bpp::AbstractHomogeneousTreeLikelihood , bpp::AbstractNonHomogeneousTreeLikelihood , bpp::DRASDRTreeLikelihoodData
• nbModels_ : bpp::AbstractNonHomogeneousTreeLikelihood::ConstNonHomogeneousSiteModelIterator
• nbNodes_ : bpp::AbstractHomogeneousTreeLikelihood , bpp::AbstractNonHomogeneousTreeLikelihood , bpp::NonHomogeneousSequenceSimulator
• nbRates_ : bpp::MarkovModulatedSubstitutionModel
• nbrOfAxes_ : bpp::MvaFrequenciesSet , bpp::Coala , bpp::CoalaCore
• nbSites_ : bpp::TwoTreeLikelihood , bpp::AbstractHomogeneousTreeLikelihood , bpp::AbstractNonHomogeneousTreeLikelihood , bpp::AbstractTreeLikelihood::ConstNoPartitionBranchModelDescription , bpp::DRASDRTreeLikelihoodData , bpp::DRASRTreeLikelihoodData , bpp::MarginalAncestralStateReconstruction , bpp::AbstractSubstitutionMapping , bpp::DRTreeParsimonyData
• nbStates_ : bpp::AbstractTreeParsimonyScore , bpp::DRTreeParsimonyData , bpp::NonHomogeneousSequenceSimulator , bpp::TwoTreeLikelihood , bpp::AbstractHomogeneousTreeLikelihood , bpp::AbstractNonHomogeneousTreeLikelihood , bpp::DRASDRTreeLikelihoodData , bpp::DRASRTreeLikelihoodData , bpp::MarginalAncestralStateReconstruction , bpp::BranchLikelihood , bpp::DecompositionSubstitutionCount , bpp::UniformizationSubstitutionCount , bpp::MarkovModulatedSubstitutionModel , bpp::SubstitutionModelSet
• NeighborJoining() : bpp::NeighborJoining
• nestedPrefix_ : bpp::MarkovModulatedSubstitutionModel , bpp::gBGC , bpp::RE08
• NestedPrefix_ : bpp::WordFromUniqueFrequenciesSet
• nestedRatePrefix_ : bpp::G2001
• new_alphabet_ : bpp::AbstractWordSubstitutionModel
• Newick() : bpp::Newick
• NEWICK_FORMAT : bpp::IOTreeFactory
• newOutGroup() : bpp::Tree , bpp::TreeTemplate< N >
• next() : bpp::AbstractHomogeneousTreeLikelihood::ConstHomogeneousSiteModelIterator , bpp::AbstractNonHomogeneousTreeLikelihood::ConstNonHomogeneousSiteModelIterator , bpp::AbstractTreeLikelihood::SimpleBranchIterator , bpp::AbstractTreeLikelihood::SimpleSiteIterator , bpp::AbstractTreeLikelihood::ConstNoPartitionBranchModelIterator , bpp::TreeLikelihood::BranchIterator , bpp::TreeLikelihood::SiteIterator , bpp::TreeLikelihood::ConstBranchModelIterator , bpp::TreeLikelihood::ConstSiteModelIterator
• NEXUS_FORMAT : bpp::IOTreeFactory
• NexusIOTree() : bpp::NexusIOTree
• Nhx() : bpp::Nhx
• NHX_FORMAT : bpp::IOTreeFactory
• NNIHomogeneousTreeLikelihood() : bpp::NNIHomogeneousTreeLikelihood
• NNISearchable() : bpp::NNISearchable
• NNITopologyListener() : bpp::NNITopologyListener
• NNITopologyListener2() : bpp::NNITopologyListener2
• NNITopologySearch() : bpp::NNITopologySearch
• Node() : bpp::Node , bpp::MixedSubstitutionModelSet::HyperNode::Node , bpp::Node
• node_ : bpp::DrawIBranchEvent , bpp::DrawINodeEvent , bpp::DRASDRTreeLikelihoodNodeData , bpp::DRASRTreeLikelihoodNodeData , bpp::DRTreeParsimonyNodeData , bpp::NodePException
• nodeBitsets_ : bpp::DRTreeParsimonyNodeData
• nodeD2Likelihoods_ : bpp::DRASDRTreeLikelihoodNodeData , bpp::DRASRTreeLikelihoodNodeData
• nodeData_ : bpp::DRASDRTreeLikelihoodData , bpp::DRTreeParsimonyData , bpp::DRASRTreeLikelihoodData
• nodeDepths_ : bpp::PhyloStatistics
• nodeDLikelihoods_ : bpp::DRASDRTreeLikelihoodNodeData , bpp::DRASRTreeLikelihoodNodeData
• NodeException() : bpp::NodeException
• nodeHeights_ : bpp::PhyloStatistics
• nodeId_ : bpp::NodeException
• nodeIds_ : bpp::PhyloStatistics
• nodeLikelihoods_ : bpp::DRASDRTreeLikelihoodNodeData , bpp::DRASRTreeLikelihoodNodeData
• NodeNotFoundException() : bpp::NodeNotFoundException
• nodeNumberOfSons_ : bpp::PhyloStatistics
• NodePException() : bpp::NodePException
• nodeProperties_ : bpp::Node
• nodes_ : bpp::AbstractHomogeneousTreeLikelihood , bpp::AbstractSubstitutionMapping , bpp::AbstractNonHomogeneousTreeLikelihood
• nodeScores_ : bpp::DRTreeParsimonyNodeData
• nodesId_ : bpp::AbstractTreeLikelihood::SimpleBranchIterator , bpp::AbstractTreeLikelihood::ConstNoPartitionSiteModelDescription
• NodesIdTreeDrawingListener() : bpp::NodesIdTreeDrawingListener
• NodeTemplate() : bpp::NodeTemplate< NodeInfos >
• nodeToModel_ : bpp::SubstitutionModelSet
• nodeToParenthesis() : bpp::TreeTools , bpp::Nhx , bpp::TreeTemplateTools
• NonHomogeneousSequenceSimulator() : bpp::NonHomogeneousSequenceSimulator
• normalizeRateChanges_ : bpp::MarkovModulatedSubstitutionModel
• normalizeVRates() : bpp::AbstractBiblioMixedSubstitutionModel , bpp::AbstractMixedSubstitutionModel , bpp::MixedSubstitutionModel
• notifyAllPerformed() : bpp::NNITopologySearch
• notifyAllSuccessful() : bpp::NNITopologySearch
• notifyAllTested() : bpp::NNITopologySearch
• nStep_ : bpp::NNITopologyListener
• NUCLEOTIDE : bpp::BppOFrequenciesSetFormat , bpp::BppOSubstitutionModelFormat
• numberOfAncestors_ : bpp::PhyloStatistics
• numberOfLeaves : bpp::PGMAInfos , bpp::ClusterInfos , bpp::TreeTemplateTools::Moments_
• numberOfLeaves_ : bpp::CladogramPlot , bpp::PhylogramPlot , bpp::PhyloStatistics