Package | Description |
---|---|
pal.substmodel |
Classes describing substitution models, i.e.
|
Modifier and Type | Class | Description |
---|---|---|
class |
BLOSUM62 |
BLOSUM62 model of amino acid evolution
|
class |
CPREV |
CPREV model of amino acid evolution (J.Adachi et al.
|
class |
Dayhoff |
Dayhoff model for amino acid evolution
Dayhoff, M.O., Schwartz, R.M., Orcutt, B.C.
|
class |
JTT |
JTT model of amino acid evolution
Jones, D.
|
class |
MTREV24 |
MTREV24 model of amino acid evolution
|
class |
VT |
VT (variable time matrix) model of amino acid evolution
Modeling Amino Acid Replacement Mueller, T.
|
class |
WAG |
WAG model of amino acid evolution (S.
|
Modifier and Type | Method | Description |
---|---|---|
static AminoAcidModel |
AminoAcidModel.getInstance(int modelID,
double[] freq) |
Create amino acid model according to model type
|