Uses of Interface
pal.misc.ExternalParameterListener
Packages that use ExternalParameterListener
Package
Description
Classes that don't fit elsewhere ;^)
Classes describing substitution models, i.e.
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Uses of ExternalParameterListener in pal.misc
Methods in pal.misc that return ExternalParameterListenerModifier and TypeMethodDescriptionstatic final ExternalParameterListenerPalEventMulticaster.add(ExternalParameterListener old, ExternalParameterListener toAdd) For managing ExternalParamterListeners Usage: ExternalParamterListener current = null; ...static final ExternalParameterListenerPalEventMulticaster.remove(ExternalParameterListener old, ExternalParameterListener toRemove) For managing ExternalParamterListeners Usage: ExternalParamterListener current = null; ...Methods in pal.misc with parameters of type ExternalParameterListenerModifier and TypeMethodDescriptionstatic final ExternalParameterListenerPalEventMulticaster.add(ExternalParameterListener old, ExternalParameterListener toAdd) For managing ExternalParamterListeners Usage: ExternalParamterListener current = null; ...static final 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 ExternalParameterListenerModifier and TypeClassDescriptionclassabstract base class for all rate matricesclassbase class of rate matrices for amino acidsclassBLOSUM62 model of amino acid evolutionclassbase class for nucleotide rate matricesclassCPREV model of amino acid evolution (J.Adachi et al.classDayhoff model for amino acid evolution Dayhoff, M.O., Schwartz, R.M., Orcutt, B.C.classFelsenstein 1981 model of nucleotide evolutionclassFelsenstein 1984 (PHYLIP) model of nucleotide evolutionclassGTR (general time reversible) model of nucleotide evolution Lanave, C., G.classHasegawa-Kishino-Yano model of nucleotide evolution Hasegawa, M., H.classJTT model of amino acid evolution Jones, D.classMTREV24 model of amino acid evolutionclassbase class for nucleotide rate matricesclassTamura-Nei model of nucleotide evolution Tamura, K.classimplements the most general reversible rate matrix for two-state dataclassVT (variable time matrix) model of amino acid evolution Modeling Amino Acid Replacement Mueller, T.classWAG model of amino acid evolution (S.classYang's model of codon evolution More advanced codon Substitution Models (of Neilson and Yang) are now included (the M1, and M2 models).