resultNest_mcmc_4p_SSM_Linear: Result of the mcmc using the nest database

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

Result of the mcmc using the nest database

Description

Fit using the nest database

Usage

resultNest_mcmc_4p_SSM_Linear

Format

A list of class mcmcComposite with mcmc result for data(nest) with 4 parameters and linear model of growth

Details

Result of the mcmc using the nest database

Author(s)

Marc Girondot [e-mail]

Examples

## Not run: 
library(embryogrowth)
data(nest)
formated <- FormatNests(nest)
pfixed <- NULL
M0 = 0
############################################################################
# 4 parameters SSM
############################################################################
x <- c('DHA' = 64.868697530424186, 'DHH' = 673.18292743646771, 
       'T12H' = 400.90952554047749, 'Rho25' = 82.217237723502123)
resultNest_4p_SSM_Linear <- searchR(parameters=x, fixed.parameters=pfixed, 
	temperatures=formated, integral=integral.linear, M0=M0, 
	hatchling.metric=c(Mean=39.33, SD=1.92)/39.33)
data(resultNest_4p_SSM_Linear)
pMCMC <- TRN_MHmcmc_p(resultNest_4p_SSM_Linear, accept=TRUE)
# Take care, it can be very long, sometimes several days
resultNest_mcmc_4p_SSM_Linear <- GRTRN_MHmcmc(result=resultNest_4p_SSM_Linear, 
 adaptive = TRUE, 
	parametersMCMC=pMCMC, n.iter=10000, n.chains = 1, n.adapt = 0,  
	thin=1, trace=TRUE)
data(resultNest_mcmc_4p_SSM_Linear)
1-rejectionRate(as.mcmc(resultNest_mcmc_4p_SSM_Linear))
as.parameters(resultNest_mcmc_4p_SSM_Linear)
layout(mat=matrix(1:4, nrow = 2))
plot(resultNest_mcmc_4p_SSM_Linear, parameters = "all", scale.prior = TRUE, las = 1)
layout(mat=1)
plotR(resultNest_4p_SSM_Linear, resultmcmc=resultNest_mcmc_4p_SSM_Linear, ylim=c(0,4), 
         main="Schoolfield, Sharpe & Magnuson 4-parameters", show.density=TRUE)

## End(Not run)

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