Package | Description |
---|---|
pal.mep |
Classes for the analysis of "measurably evolving populations" (mep).
|
pal.treesearch |
Modifier and Type | Method and Description |
---|---|
ConstraintModel |
MutationRateModel.Factory.buildConstraintModel(SampleInformation si,
MolecularClockLikelihoodModel.Instance likelihoodModel) |
ConstraintModel |
DeltaModel.buildConstraintModel(SampleInformation si,
MolecularClockLikelihoodModel.Instance likelihoodModel) |
Modifier and Type | Class and Description |
---|---|
class |
FixedBSRDTGlobalClockModel |
class |
FixedSRDTGlobalClockModel |
class |
GlobalClockModel |
class |
MRDTGlobalClockModel |
class |
SRDTGlobalClockModel |
class |
UnconstrainedModel |
Modifier and Type | Method and Description |
---|---|
GeneralConstraintGroupManager |
GeneralConstraintGroupManager.Store.getConstraintGroupManager(java.lang.String[] leafLabelSet,
ConstraintModel constraints) |
Constructor and Description |
---|
GeneralConstructionTool(ConstraintModel constraints,
Alignment alignment)
The constructor
|
GeneralLikelihoodSearcher(Node baseTopology,
Alignment baseAlignment,
ConstraintModel constraintModel) |