Uses of Interface
pal.misc.ExternalParameterListener
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Packages that use ExternalParameterListener Package Description pal.misc Classes that don't fit elsewhere ;^)pal.substmodel Classes describing substitution models, i.e. -
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Uses of ExternalParameterListener in pal.misc
Methods in pal.misc that return ExternalParameterListener Modifier and Type Method Description static ExternalParameterListenerPalEventMulticaster. add(ExternalParameterListener old, ExternalParameterListener toAdd)For managing ExternalParamterListeners Usage: ExternalParamterListener current = null; ...static ExternalParameterListenerPalEventMulticaster. remove(ExternalParameterListener old, ExternalParameterListener toRemove)For managing ExternalParamterListeners Usage: ExternalParamterListener current = null; ...Methods in pal.misc with parameters of type ExternalParameterListener Modifier and Type Method Description static ExternalParameterListenerPalEventMulticaster. add(ExternalParameterListener old, ExternalParameterListener toAdd)For managing ExternalParamterListeners Usage: ExternalParamterListener current = null; ...static ExternalParameterListenerPalEventMulticaster. remove(ExternalParameterListener old, ExternalParameterListener toRemove)For managing ExternalParamterListeners Usage: ExternalParamterListener current = null; ... -
Uses of ExternalParameterListener in pal.substmodel
Classes in pal.substmodel that implement ExternalParameterListener Modifier and Type Class Description classAbstractRateMatrixabstract base class for all rate matricesclassAminoAcidModelbase class of rate matrices for amino acidsclassBLOSUM62BLOSUM62 model of amino acid evolutionclassCodonModelbase class for nucleotide rate matricesclassCPREVCPREV model of amino acid evolution (J.Adachi et al.classDayhoffDayhoff model for amino acid evolution Dayhoff, M.O., Schwartz, R.M., Orcutt, B.C.classF81Felsenstein 1981 model of nucleotide evolutionclassF84Felsenstein 1984 (PHYLIP) model of nucleotide evolutionclassGTRGTR (general time reversible) model of nucleotide evolution Lanave, C., G.classHKYHasegawa-Kishino-Yano model of nucleotide evolution Hasegawa, M., H.classJTTJTT model of amino acid evolution Jones, D.classMTREV24MTREV24 model of amino acid evolutionclassNucleotideModelbase class for nucleotide rate matricesclassTNTamura-Nei model of nucleotide evolution Tamura, K.classTwoStateModelimplements the most general reversible rate matrix for two-state dataclassVTVT (variable time matrix) model of amino acid evolution Modeling Amino Acid Replacement Mueller, T.classWAGWAG model of amino acid evolution (S.classYangCodonModelYang's model of codon evolution More advanced codon Substitution Models (of Neilson and Yang) are now included (the M1, and M2 models).
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