HatchingSuccess.lnL: Return -log likelihood of the data and the parameters

In embryogrowth: Tools to Analyze the Thermal Reaction Norm of Embryo Growth

Return -log likelihood of the data and the parameters

Description

Set of functions to study the hatching success.

Usage

HatchingSuccess.lnL(
  par,
  data,
  fixed.parameters = NULL,
  column.Incubation.temperature = "Incubation.temperature",
  column.Hatched = "Hatched",
  column.NotHatched = "NotHatched"
)

Arguments

par	A set of parameters.
data	A dataset in a data.frame with a least three columns: Incubation.temperature, Hatched and NotHatched
fixed.parameters	A set of parameters that must not be fitted.
column.Incubation.temperature	Name of the column with incubation temperatures
column.Hatched	Name of the column with hatched number
column.NotHatched	Name of the column with not hatched number

Details

HatchingSuccess.lnL return -log likelihood of the data and the parameters

Value

Return -log likelihood of the data and the parameters

Author(s)

Marc Girondot

See Also

Other Hatching success: HatchingSuccess.MHmcmc(), HatchingSuccess.MHmcmc_p(), HatchingSuccess.fit(), HatchingSuccess.model(), logLik.HatchingSuccess(), nobs.HatchingSuccess(), predict.HatchingSuccess()

Examples

## Not run: 
library(embryogrowth)
totalIncubation_Cc <- subset(DatabaseTSD, 
                             Species=="Caretta caretta" & 
                               Note != "Sinusoidal pattern" & 
                               !is.na(Total) & Total != 0 & 
                               !is.na(NotHatched) & !is.na(Hatched))

par <- c(S.low=0.5, S.high=0.3, 
         P.low=25, deltaP=10, MaxHS=0.8)
         
HatchingSuccess.lnL(par=par, data=totalIncubation_Cc)

g <- HatchingSuccess.fit(par=par, data=totalIncubation_Cc)

HatchingSuccess.lnL(par=g$par, data=totalIncubation_Cc)

t <- seq(from=20, to=40, by=0.1)
CIq <- predict(g, temperature=t)

par(mar=c(4, 4, 1, 1), +0.4)
plot(g)

## End(Not run)

embryogrowth documentation built on Sept. 11, 2024, 8:16 p.m.