public class DNAModelFactory
extends java.lang.Object
Modifier and Type | Method and Description |
---|---|
static Model |
Felsenstein81_Gamma(Parameters p,
int numCats)
Creates an instance of a JFelsenstein 81 model with gamma-distributed rate
across sites
|
static Model |
Felsenstein81(Parameters p)
Creates an instance of a Felsenstein 81 model
|
static Model |
GTR_Gamma(Parameters p,
int numCats)
Creates an instance of a General Time Reversable model with gamma-distributed rate
across sites
|
static Model |
GTR(Parameters p)
Creates an instance of a General Time Reversable model
|
static Model |
HKY_Gamma(Parameters p,
int numCats)
Creates an instance of a HKY model with gamma-distributed rate
across sites
|
static Model |
HKY(Parameters p)
Creates an instance of a HKY model
|
static Model |
JukesCantor_Gamma(Parameters p,
int numCats)
Creates an instance of a Jukes-Cantor model with gamma-distributed rate
across sites
|
static Model |
JukesCantor(Parameters p)
Creates an instance of a Jukes-Cantor model
|
static Model |
Kimura_Gamma(Parameters p,
int numCats)
Creates an instance of a Kimura 2-parameter model with gamma-distributed rate
across sites
|
static Model |
Kimura(Parameters p)
Creates an instance of a Kimura 2-paramter model
|
public static Model JukesCantor(Parameters p)
p
- Parameters structure to add the model parameters to (none in
this case but for consistency this is left here)public static Model JukesCantor_Gamma(Parameters p, int numCats)
p
- Parameters structure to add the model parameters tonumCats
- The number of gamma categories to usepublic static Model Kimura(Parameters p)
p
- Parameters structure to add the model parameters topublic static Model Kimura_Gamma(Parameters p, int numCats)
p
- Parameters structure to add the model parameters tonumCats
- The number of gamma categories to usepublic static Model Felsenstein81(Parameters p)
p
- Parameters structure to add the model parameters topublic static Model Felsenstein81_Gamma(Parameters p, int numCats)
p
- Parameters structure to add the model parameters tonumCats
- The number of gamma categories to usepublic static Model HKY(Parameters p)
p
- Parameters structure to add the model parameters topublic static Model HKY_Gamma(Parameters p, int numCats)
p
- Parameters structure to add the model parameters tonumCats
- The number of gamma categories to usepublic static Model GTR(Parameters p)
p
- Parameters structure to add the model parameters topublic static Model GTR_Gamma(Parameters p, int numCats)
p
- Parameters structure to add the model parameters tonumCats
- The number of gamma categories to use