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java.lang.ObjectModels.DNAModelFactory
public class DNAModelFactory
A factory for easing the creation of many standard DNA models
Method Summary | |
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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 |
Methods inherited from class java.lang.Object |
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clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait |
Method Detail |
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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 use
public static Model Kimura(Parameters p)
p
- Parameters structure to add the model parameters to
public static Model Kimura_Gamma(Parameters p, int numCats)
p
- Parameters structure to add the model parameters tonumCats
- The number of gamma categories to use
public static Model Felsenstein81(Parameters p)
p
- Parameters structure to add the model parameters to
public static Model Felsenstein81_Gamma(Parameters p, int numCats)
p
- Parameters structure to add the model parameters tonumCats
- The number of gamma categories to use
public static Model HKY(Parameters p)
p
- Parameters structure to add the model parameters to
public static Model HKY_Gamma(Parameters p, int numCats)
p
- Parameters structure to add the model parameters tonumCats
- The number of gamma categories to use
public static Model GTR(Parameters p)
p
- Parameters structure to add the model parameters to
public static Model GTR_Gamma(Parameters p, int numCats)
p
- Parameters structure to add the model parameters tonumCats
- The number of gamma categories to use
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