| Copyright | 2021 Dominik Schrempf |
|---|---|
| License | GPL-3.0-or-later |
| Maintainer | dominik.schrempf@gmail.com |
| Stability | unstable |
| Portability | portable |
| Safe Haskell | Safe-Inferred |
| Language | Haskell2010 |
ELynx.MarkovProcess.AminoAcid
Description
Creation date: Tue Jan 29 09:29:19 2019.
The order of amino acids is alphabetic.
Synopsis
- lg :: Normalize -> SubstitutionModel
- lgCustom :: Maybe String -> Normalize -> StationaryDistribution -> SubstitutionModel
- wag :: Normalize -> SubstitutionModel
- wagCustom :: Maybe String -> Normalize -> StationaryDistribution -> SubstitutionModel
- poisson :: Normalize -> SubstitutionModel
- poissonCustom :: Maybe String -> Normalize -> StationaryDistribution -> SubstitutionModel
- gtr20 :: Normalize -> [Double] -> StationaryDistribution -> SubstitutionModel
- alphaToPamlVec :: Vector R -> Vector R
- pamlToAlphaVec :: Vector R -> Vector R
Amino acid substitution models
lg :: Normalize -> SubstitutionModel Source #
LG substitution model.
lgCustom :: Maybe String -> Normalize -> StationaryDistribution -> SubstitutionModel Source #
LG substitution model with maybe a name and a custom stationary distribution.
wag :: Normalize -> SubstitutionModel Source #
LG substitution model.
wagCustom :: Maybe String -> Normalize -> StationaryDistribution -> SubstitutionModel Source #
LG substitution model with maybe a name and a custom stationary distribution.
poisson :: Normalize -> SubstitutionModel Source #
Poisson substitution model.
poissonCustom :: Maybe String -> Normalize -> StationaryDistribution -> SubstitutionModel Source #
Poisson substitution model with maybe a name and a custom stationary distribution.
gtr20 :: Normalize -> [Double] -> StationaryDistribution -> SubstitutionModel Source #
General time reversible (GTR) substitution model for amino acids.