- c -

• c_ : bpp::GTR
• calcul_ : bpp::GivenDataSubstitutionProcessSequenceSimulator , bpp::GivenDataSubstitutionProcessSiteSimulator
• categories_ : bpp::CategorySubstitutionRegister
• categoryCorrespondance_ : bpp::AAExteriorSubstitutionRegister , bpp::AAInteriorSubstitutionRegister
• categoryNames_ : bpp::CategorySubstitutionRegister , bpp::SelectedSubstitutionRegister
• catProb_ : bpp::LikelihoodCalculationOnABranch , bpp::LikelihoodCalculationSingleProcess
• CENTROID : bpp::HierarchicalClustering
• clt : bpp::LikelihoodCalculationSingleProcess::RateCategoryTrees
• CODON : bpp::BppOFrequencySetFormat , bpp::BppOSubstitutionModelFormat
• coeffs_ : bpp::CombineDeltaShifted< T >
• collapsed_ : bpp::TreeDrawingNodeInfo
• collection_ : bpp::CollectionNodes
• collectionNodes_ : bpp::PhyloLikelihoodContainer
• cols : bpp::MatrixDimension
• columnWeights_ : bpp::MvaFrequencySet
• colWeights_ : bpp::CoalaCore
• compFreq_ : bpp::MarkovModulatedSubstitutionModel
• COMPLETE : bpp::HierarchicalClustering
• compTree_ : bpp::PhyloLikelihoodFormula
• computeFirstOrderDerivatives_ : bpp::AbstractTreeLikelihood
• computeFreq_ : bpp::AbstractSubstitutionModel
• computeSecondOrderDerivatives_ : bpp::AbstractTreeLikelihood
• ConditionalProbabilities_ : bpp::StochasticMapping
• condLik_ : bpp::ForwardHmmLikelihood_DF
• condLikelihoodTree_ : bpp::LikelihoodCalculationSingleProcess
• config : bpp::ConfiguredDistribution , bpp::ConfiguredFrequencySet , bpp::ConfiguredModel , bpp::ConfiguredSimplex , bpp::ConfiguredTransitionMatrix
• content : bpp::IODAG::Element , bpp::IOTree::Element , bpp::TreeTemplateTools::Element
• context_ : bpp::AbstractPhyloLikelihood , bpp::BackwardLikelihoodTree , bpp::CollectionNodes , bpp::ConfiguredParameter , bpp::ForwardLikelihoodTree , bpp::HmmLikelihood_DF , bpp::HmmPhyloAlphabet , bpp::HmmPhyloEmissionProbabilities , bpp::LikelihoodCalculation , bpp::PhyloLikelihoodContainer , bpp::ProbabilityDAG , bpp::ProcessTree
• continuousRates_ : bpp::NonHomogeneousSequenceSimulator , bpp::SimpleSubstitutionProcessSiteSimulator
• countMultiple_ : bpp::DnDsSubstitutionRegister
• counts_ : bpp::AbstractSinglePhyloSubstitutionMapping , bpp::DecompositionSubstitutionCount , bpp::PhyloBranchMapping , bpp::UniformizationSubstitutionCount
• cumProb_ : bpp::SimProcessNode
• cumpxy : bpp::SimData
• cumpxy_ : bpp::SimProcessEdge
• currentIndex_ : bpp::SiteSimulationResult
• currentLength_ : bpp::DecompositionReward , bpp::DecompositionSubstitutionCount , bpp::LaplaceSubstitutionCount , bpp::UniformizationSubstitutionCount
• currentNodes_ : bpp::AbstractAgglomerativeDistanceMethod
• currNode_ : bpp::TreeIterator
• cursor_ : bpp::DrawBranchEvent , bpp::DrawNodeEvent
• cutOff_ : bpp::LaplaceSubstitutionCount