Package | Description |
---|---|
pal.eval |
Classes for evaluating evolutionary hypothesis (chi-square and likelihood
criteria) and estimating model parameters.
|
pal.treesearch |
Modifier and Type | Class | Description |
---|---|---|
static class |
SimpleUnconstrainedLikelihoodModel.LeafImpl |
Modifier and Type | Method | Description |
---|---|---|
UnconstrainedLikelihoodModel.Leaf |
UnconstrainedLikelihoodModel.Instance.createNewLeaf(int[] patternStateMatchup,
int numberOfPatterns) |
Create anew leaf calculator
|
UnconstrainedLikelihoodModel.Leaf |
SimpleUnconstrainedLikelihoodModel.LeafImpl.getCopy() |
|
UnconstrainedLikelihoodModel.Leaf |
UnconstrainedLikelihoodModel.Leaf.getCopy() |
Create a new Leaf calculator that has exactly the same properties as this one (but is different such that it may be used independently)
|
Modifier and Type | Method | Description |
---|---|---|
UnconstrainedLikelihoodModel.Leaf |
ConstraintModel.createNewFreeLeaf(int[] patternStateMatchup,
int numberOfPatterns) |
|
UnconstrainedLikelihoodModel.Leaf |
FixedBSRDTGlobalClockModel.createNewFreeLeaf(int[] patternStateMatchup,
int numberOfPatterns) |
|
UnconstrainedLikelihoodModel.Leaf |
FixedSRDTGlobalClockModel.createNewFreeLeaf(int[] patternStateMatchup,
int numberOfPatterns) |
|
UnconstrainedLikelihoodModel.Leaf |
GlobalClockModel.createNewFreeLeaf(int[] patternStateMatchup,
int numberOfPatterns) |
|
UnconstrainedLikelihoodModel.Leaf |
MRDTGlobalClockModel.createNewFreeLeaf(int[] patternStateMatchup,
int numberOfPatterns) |
|
UnconstrainedLikelihoodModel.Leaf |
SRDTGlobalClockModel.createNewFreeLeaf(int[] patternStateMatchup,
int numberOfPatterns) |
|
UnconstrainedLikelihoodModel.Leaf |
UnconstrainedModel.createNewFreeLeaf(int[] patternStateMatchup,
int numberOfPatterns) |
|
protected UnconstrainedLikelihoodModel.Leaf |
AbstractLeafNode.createNewFreeLeafCalculator(GeneralConstructionTool tool) |
|
UnconstrainedLikelihoodModel.Leaf |
GeneralConstructionTool.createNewFreeLeafCalculator(int[] patternStateMatchup,
int numberOfPatterns) |