| Package | Description |
|---|---|
| pal.alignment |
Classes dealing with sequence alignments, including methods for reading
and printing in several possible formats, as well as rearranging and
concatenating.
|
| pal.popgen |
Classes for providing 'classical' population genetics analyses.
|
| Modifier and Type | Interface and Description |
|---|---|
interface |
CharacterAlignment
This interface is designed to hold quantitative character states.
|
| Modifier and Type | Class and Description |
|---|---|
class |
SimpleCharacterAlignment
This provides a basic implementation of CharacterAlignment.
|
| Modifier and Type | Class and Description |
|---|---|
class |
LinkageDisequilibrium
This class calculates D' and r^2 estimates of linkage disequilibrium.
|