- w -
- WAG01() : bpp::WAG01
- weightsHaveChanged() : bpp::AbstractWeightedSubstitutionCount, bpp::DecompositionSubstitutionCount, bpp::NaiveSubstitutionCount, bpp::UniformizationSubstitutionCount
- WordFromIndependentFrequencySet() : bpp::WordFromIndependentFrequencySet
- WordFromUniqueFrequencySet() : bpp::WordFromUniqueFrequencySet
- WordSubstitutionModel() : bpp::WordSubstitutionModel
- worksWith() : bpp::HmmPhyloAlphabet, bpp::HmmProcessAlphabet
- WrappedModelInterface() : bpp::WrappedModelInterface
- WrappedSubstitutionModelInterface() : bpp::WrappedSubstitutionModelInterface
- WrappedTransitionModelInterface() : bpp::WrappedTransitionModelInterface
- write() : bpp::BppOSubstitutionModelFormat, bpp::OSubstitutionModel
- write_() : bpp::ExtendedNewick, bpp::Newick, bpp::NexusIOTree, bpp::Nhx
- writeDiscreteDistribution() : bpp::BppORateDistributionFormat
- writeFrequencySet() : bpp::BppOFrequencySetFormat, bpp::OFrequencySet
- writeMixed_() : bpp::BppOSubstitutionModelFormat
- writePairedSiteLikelihoods() : bpp::IOTreepuzzlePairedSiteLikelihoods
- writePhyloDAG() : bpp::AbstractOPhyloDAG, bpp::ExtendedNewick, bpp::OPhyloDAG
- writePhyloDAGs() : bpp::AbstractOMultiPhyloDAG, bpp::ExtendedNewick, bpp::OMultiPhyloDAG
- writePhyloTree() : bpp::AbstractOPhyloTree, bpp::Newick, bpp::NexusIOTree, bpp::Nhx, bpp::OPhyloTree
- writePhyloTrees() : bpp::AbstractOMultiPhyloTree, bpp::Newick, bpp::NexusIOTree, bpp::Nhx, bpp::OMultiPhyloTree, bpp::PhylogeneticsApplicationTools
- writeToStream() : bpp::LegacyRewardMappingTools, bpp::LegacySubstitutionMappingTools, bpp::RewardMappingTools, bpp::SubstitutionMappingTools
- writeTree() : bpp::AbstractOTree, bpp::Newick, bpp::NexusIOTree, bpp::Nhx, bpp::OTree, bpp::PhylogeneticsApplicationTools
- writeTrees() : bpp::AbstractOMultiTree, bpp::LegacyPhylogeneticsApplicationTools, bpp::Newick, bpp::NexusIOTree, bpp::Nhx, bpp::OMultiTree