Package | Description |
---|---|
pal.mep |
Classes for the analysis of "measurably evolving populations" (mep).
|
pal.misc |
Classes that don't fit elsewhere ;^)
|
pal.treesearch |
Modifier and Type | Method | Description |
---|---|---|
ConstraintModel |
DeltaModel.buildConstraintModel(SampleInformation si,
MolecularClockLikelihoodModel.Instance likelihoodModel) |
|
ConstraintModel |
MutationRateModel.Factory.buildConstraintModel(SampleInformation si,
MolecularClockLikelihoodModel.Instance likelihoodModel) |
Modifier and Type | Class | Description |
---|---|---|
class |
TOCDSampleInformation |
Title: TOCDSampleInformation
|
Modifier and Type | Method | Description |
---|---|---|
SampleInformation |
SampleInformation.Factory.createSampleInformation(java.lang.String[] allLeafIDs) |
Constructor | Description |
---|---|
FixedBSRDTGlobalClockModel(SampleInformation sampleInformation,
MolecularClockLikelihoodModel.Instance likelihoodModel,
double rate) |
|
FixedSRDTGlobalClockModel(SampleInformation sampleInformation,
MolecularClockLikelihoodModel.Instance likelihoodModel,
double rate) |
|
MRDTGlobalClockModel(SampleInformation sampleInformation,
MolecularClockLikelihoodModel.Instance likelihoodModel) |
|
MRDTGlobalClockModel(SampleInformation sampleInformation,
MolecularClockLikelihoodModel.Instance likelihoodModel,
double[] rateChangeTimes) |
|
SRDTGlobalClockModel(SampleInformation sampleInformation,
MolecularClockLikelihoodModel.Instance likelihoodModel) |
|
SRDTGlobalClockModel(SampleInformation sampleInformation,
MolecularClockLikelihoodModel.Instance likelihoodModel,
boolean allowMetaRate) |