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 ExternalParameterListener
PalEventMulticaster. add(ExternalParameterListener old, ExternalParameterListener toAdd)
For managing ExternalParamterListeners Usage: ExternalParamterListener current = null; ...static ExternalParameterListener
PalEventMulticaster. 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 ExternalParameterListener
PalEventMulticaster. add(ExternalParameterListener old, ExternalParameterListener toAdd)
For managing ExternalParamterListeners Usage: ExternalParamterListener current = null; ...static ExternalParameterListener
PalEventMulticaster. 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 class
AbstractRateMatrix
abstract base class for all rate matricesclass
AminoAcidModel
base class of rate matrices for amino acidsclass
BLOSUM62
BLOSUM62 model of amino acid evolutionclass
CodonModel
base class for nucleotide rate matricesclass
CPREV
CPREV model of amino acid evolution (J.Adachi et al.class
Dayhoff
Dayhoff model for amino acid evolution Dayhoff, M.O., Schwartz, R.M., Orcutt, B.C.class
F81
Felsenstein 1981 model of nucleotide evolutionclass
F84
Felsenstein 1984 (PHYLIP) model of nucleotide evolutionclass
GTR
GTR (general time reversible) model of nucleotide evolution Lanave, C., G.class
HKY
Hasegawa-Kishino-Yano model of nucleotide evolution Hasegawa, M., H.class
JTT
JTT model of amino acid evolution Jones, D.class
MTREV24
MTREV24 model of amino acid evolutionclass
NucleotideModel
base class for nucleotide rate matricesclass
TN
Tamura-Nei model of nucleotide evolution Tamura, K.class
TwoStateModel
implements the most general reversible rate matrix for two-state dataclass
VT
VT (variable time matrix) model of amino acid evolution Modeling Amino Acid Replacement Mueller, T.class
WAG
WAG model of amino acid evolution (S.class
YangCodonModel
Yang'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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