- u -

• UniformizationSubstitutionCount() : bpp::UniformizationSubstitutionCount
• unroot() : bpp::TreeTemplate< N > , bpp::Tree
• UnrootedTreeException() : bpp::UnrootedTreeException
• updateFrequencies() : bpp::CodonFromUniqueFrequenciesSet , bpp::MvaFrequenciesSet , bpp::WordFromIndependentFrequenciesSet , bpp::WordFromUniqueFrequenciesSet , bpp::FullPerAACodonFrequenciesSet , bpp::CodonFromIndependentFrequenciesSet
• updateMatrices() : bpp::BinarySubstitutionModel , bpp::JCprot , bpp::Coala , bpp::L95 , bpp::RN95 , bpp::YpR , bpp::TN93 , bpp::AbstractCodonSubstitutionModel , bpp::RN95s , bpp::SSR , bpp::YNGKP_M1 , bpp::T92 , bpp::K80 , bpp::JCnuc , bpp::HKY85 , bpp::YNGKP_M2 , bpp::gBGC , bpp::F84 , bpp::MixtureOfSubstitutionModels , bpp::YNGKP_M3 , bpp::MarkovModulatedSubstitutionModel , bpp::RE08 , bpp::YpR_Sym , bpp::YpR_Gen , bpp::YNGKP_M7 , bpp::YNGKP_M8 , bpp::WordSubstitutionModel , bpp::AbstractBiblioSubstitutionModel , bpp::AbstractWordSubstitutionModel , bpp::GTR , bpp::MixtureOfASubstitutionModel , bpp::AbstractSubstitutionModel , bpp::AbstractReversibleSubstitutionModel
• updateRatesModel() : bpp::MarkovModulatedSubstitutionModel , bpp::TS98 , bpp::G2001
• updateRootFrequencies() : bpp::SubstitutionModelSet
• UserProteinSubstitutionModel() : bpp::UserProteinSubstitutionModel
• useTagsAsPropertyNames() : bpp::Nhx