embryogrowth (version 5.0)

result_mcmc_6p: Result of the mcmc using the nest database

Description

Fit using the nest database

Usage

result_mcmc_6p

format

A list of class mcmcComposite with mcmc result for data(nest) with 6 parameters and Gompertz model of growth

Details

Result of the mcmc using the nest database

References

Girondot, M. & Kaska, Y. Submitted. A model to predict temperature dependency on embryo growth rate and incubation duration from field data.

Examples

library(embryogrowth)
data(nest)
formated <- FormatNests(nest)
# The initial parameters value can be:
# "T12H", "DHA",  "DHH", "Rho25"
# Or
# "T12L", "DT", "DHA",  "DHH", "DHL", "Rho25"
x <- structure(c(115.758929130522, 428.649022170996, 503.687251738993,
12.2621455821612, 306.308841227278, 116.35048615105), .Names = c("DHA",
"DHH", "DHL", "DT", "T12L", "Rho25"))
pfixed <- c(rK=2.093313)
resultNest_6p <- searchR(parameters=x, fixed.parameters=pfixed,
	temperatures=formated, derivate=dydt.Gompertz, M0=1.7,
	test=c(Mean=39.33, SD=1.92), method = "BFGS", maxiter = 200)
data(resultNest_6p)
pMCMC <- embryogrowth_MHmcmc_p(resultNest_6p, accept=TRUE)
# Take care, it can be very long, sometimes several days
result_mcmc_6p <- embryogrowth_MHmcmc(result=resultNest_6p,
	parametersMCMC=pMCMC, n.iter=10000, n.chains = 1, n.adapt = 0,
	thin=1, trace=TRUE)
data(result_mcmc_6p)
plot(result_mcmc_6p, parameters="T12L", main="", xlim=c(290, 320), bty="n")