| Package | Description |
|---|---|
| pal.misc |
Classes that don't fit elsewhere ;^)
|
| pal.substmodel |
Classes describing substitution models, i.e.
|
| Constructor | Description |
|---|---|
ParameterizedDoubleBundle(MutableDouble[] parameters) |
| Modifier and Type | Method | Description |
|---|---|---|
static MutableDouble |
YangCodonModel.createKappaStore(double initialValue) |
|
static MutableDouble |
YangCodonModel.createKappaStore(double initialValue,
java.lang.String name) |
|
static MutableDouble |
YangCodonModel.createOmegaStore(double initialValue) |
|
static MutableDouble |
YangCodonModel.createOmegaStore(double initialValue,
java.lang.String name) |
| Constructor | Description |
|---|---|
NeutralSelectionRateMatrixGroup(MutableDouble kappaStore,
double[] freqs,
CodonTable table) |
|
PositiveSelectionRateMatrixGroup(MutableDouble kappaStore,
MutableDouble omegaStore,
double[] freqs,
CodonTable table) |