Uses of Interface
jebl.evolution.substmodel.RateMatrix

Packages that use RateMatrix

Package	Description
jebl.evolution.align.scores
jebl.evolution.substmodel

Uses of RateMatrix in jebl.evolution.align.scores

Constructors in jebl.evolution.align.scores with parameters of type RateMatrix

Constructor and Description
SubstScoreMatrix(RateMatrix rateMatrix)

Uses of RateMatrix in jebl.evolution.substmodel

Classes in jebl.evolution.substmodel that implement RateMatrix

Modifier and Type	Class and Description
class	AbstractRateMatrix abstract base class for all rate matrices
class	AminoAcidModel base class of rate matrices for amino acids
class	WAG WAG model of amino acid evolution (S.

Methods in jebl.evolution.substmodel with parameters of type RateMatrix

Modifier and Type	Method and Description
void	MatrixExponential.setMatrix(RateMatrix r) update rate matrix used in present module

Constructors in jebl.evolution.substmodel with parameters of type RateMatrix

Constructor and Description
MatrixExponential(RateMatrix r) create module