ELynx.Tree.Distribution.BirthDeathNearlyCritical

Creation date: Tue Feb 13 13:16:18 2018.

See Gernhard, T. (2008). The conditioned reconstructed process. Journal of Theoretical Biology, 253(4), 769–778. http://doi.org/10.1016/j.jtbi.2008.04.005.

Distribution of the values of the point process such that it corresponds to reconstructed trees under the birth and death process; nearly critical birth and death process with lambda~mu.

Basically, this is a Taylor expansion of Eq. (2) and Eq. (3).

Documentation

data BirthDeathNearlyCriticalDistribution

Distribution of the values of the point process such that it corresponds to a reconstructed tree of the birth and death process.

Constructors

BDNCD

Fields

• bdncdTOr :: Time

  Time to origin of the tree.

• bdncdLa :: Rate

  Birth and death rate.

• bdncdMu :: Rate

  Birth and death rate.

Instances

Eq BirthDeathNearlyCriticalDistribution

Defined in ELynx.Tree.Distribution.BirthDeathNearlyCritical

Methods

(==) :: BirthDeathNearlyCriticalDistribution -> BirthDeathNearlyCriticalDistribution -> Bool

(/=) :: BirthDeathNearlyCriticalDistribution -> BirthDeathNearlyCriticalDistribution -> Bool

Data BirthDeathNearlyCriticalDistribution

Defined in ELynx.Tree.Distribution.BirthDeathNearlyCritical

Methods

gfoldl :: (forall d b. Data d => c (d -> b) -> d -> c b) -> (forall g. g -> c g) -> BirthDeathNearlyCriticalDistribution -> c BirthDeathNearlyCriticalDistribution

gunfold :: (forall b r. Data b => c (b -> r) -> c r) -> (forall r. r -> c r) -> Constr -> c BirthDeathNearlyCriticalDistribution

toConstr :: BirthDeathNearlyCriticalDistribution -> Constr

dataTypeOf :: BirthDeathNearlyCriticalDistribution -> DataType

dataCast1 :: Typeable t => (forall d. Data d => c (t d)) -> Maybe (c BirthDeathNearlyCriticalDistribution)

dataCast2 :: Typeable t => (forall d e. (Data d, Data e) => c (t d e)) -> Maybe (c BirthDeathNearlyCriticalDistribution)

gmapT :: (forall b. Data b => b -> b) -> BirthDeathNearlyCriticalDistribution -> BirthDeathNearlyCriticalDistribution

gmapQl :: (r -> r' -> r) -> r -> (forall d. Data d => d -> r') -> BirthDeathNearlyCriticalDistribution -> r

gmapQr :: forall r r'. (r' -> r -> r) -> r -> (forall d. Data d => d -> r') -> BirthDeathNearlyCriticalDistribution -> r

gmapQ :: (forall d. Data d => d -> u) -> BirthDeathNearlyCriticalDistribution -> [u]

gmapQi :: Int -> (forall d. Data d => d -> u) -> BirthDeathNearlyCriticalDistribution -> u

gmapM :: Monad m => (forall d. Data d => d -> m d) -> BirthDeathNearlyCriticalDistribution -> m BirthDeathNearlyCriticalDistribution

gmapMp :: MonadPlus m => (forall d. Data d => d -> m d) -> BirthDeathNearlyCriticalDistribution -> m BirthDeathNearlyCriticalDistribution

gmapMo :: MonadPlus m => (forall d. Data d => d -> m d) -> BirthDeathNearlyCriticalDistribution -> m BirthDeathNearlyCriticalDistribution

Generic BirthDeathNearlyCriticalDistribution

Defined in ELynx.Tree.Distribution.BirthDeathNearlyCritical

Associated Types

type Rep BirthDeathNearlyCriticalDistribution :: Type -> Type

Methods

from :: BirthDeathNearlyCriticalDistribution -> Rep BirthDeathNearlyCriticalDistribution x

to :: Rep BirthDeathNearlyCriticalDistribution x -> BirthDeathNearlyCriticalDistribution

Distribution BirthDeathNearlyCriticalDistribution

Defined in ELynx.Tree.Distribution.BirthDeathNearlyCritical

Methods

cumulative :: BirthDeathNearlyCriticalDistribution -> Double -> Double

complCumulative :: BirthDeathNearlyCriticalDistribution -> Double -> Double

ContDistr BirthDeathNearlyCriticalDistribution

Defined in ELynx.Tree.Distribution.BirthDeathNearlyCritical

Methods

density :: BirthDeathNearlyCriticalDistribution -> Double -> Double

quantile :: BirthDeathNearlyCriticalDistribution -> Double -> Double

complQuantile :: BirthDeathNearlyCriticalDistribution -> Double -> Double

logDensity :: BirthDeathNearlyCriticalDistribution -> Double -> Double

ContGen BirthDeathNearlyCriticalDistribution

Defined in ELynx.Tree.Distribution.BirthDeathNearlyCritical

Methods

genContVar :: PrimMonad m => BirthDeathNearlyCriticalDistribution -> Gen (PrimState m) -> m Double

type Rep BirthDeathNearlyCriticalDistribution

Defined in ELynx.Tree.Distribution.BirthDeathNearlyCritical

type Rep BirthDeathNearlyCriticalDistribution = D1 ('MetaData "BirthDeathNearlyCriticalDistribution" "ELynx.Tree.Distribution.BirthDeathNearlyCritical" "elynx-tree-0.5.0.2-GziknJIwzW98btoIzMRbOK" 'False) (C1 ('MetaCons "BDNCD" 'PrefixI 'True) (S1 ('MetaSel ('Just "bdncdTOr") 'NoSourceUnpackedness 'NoSourceStrictness 'DecidedLazy) (Rec0 Time) :*: (S1 ('MetaSel ('Just "bdncdLa") 'NoSourceUnpackedness 'NoSourceStrictness 'DecidedLazy) (Rec0 Rate) :*: S1 ('MetaSel ('Just "bdncdMu") 'NoSourceUnpackedness 'NoSourceStrictness 'DecidedLazy) (Rec0 Rate))))

cumulative :: BirthDeathNearlyCriticalDistribution -> Time -> Double

Cumulative distribution function section 2.1.2, second formula.

density :: BirthDeathNearlyCriticalDistribution -> Time -> Double

Density function section 2.1.2, first formula.

quantile :: BirthDeathNearlyCriticalDistribution -> Double -> Time

Inverted cumulative probability distribution cumulative. See also ContDistr.