MetaLandSim (version 2.0.0)

accept.calculate: Calculate acceptance rates in MCMC chains

Description

Calculate acceptance rates of parameters in the IFM.

Usage

accept.calculate(x, model = c("naive", "missing", "robust"))

Value

Named list containing MCMC chain acceptance rates. Names are built from the input list, e.g., for model=``naive":

acc.b.chain

Acceptance rates of parameter b

acc.e.chain

Acceptance rates of parameter e

acc.y.chain

Acceptance rates of parameter y

acc.alpha.chain

Acceptance rates of parameter alpha

acc.x.chain

Acceptance rates of parameter x

Arguments

x

A named list with the MCMC chains estimated by ifm.naive.MCMC, ifm.missing.MCMC, or ifm.robust.MCMC.

model

Either "naive", "missing", or "robust"

Author

Benjamin Risk

Examples

data(simulatedifm)

# Here, we run a chain with random initial values:
init1=list(alpha=runif(1,1,30), b=runif(1,0,5),y=runif(1,0,20),e=runif(1,0,1),x=runif(1,0,5))

inm1 <- ifm.naive.MCMC(niter=1000,init=init1,z.data =
 z.sim,site.distance=sim.distance,site.area=sim.area,
  sd.prop.alpha=4,sd.prop.b=0.6,sd.prop.y=40,sd.prop.e=0.05,sd.prop.x=0.4,nthin=1,print.by=100)
accept.calculate(inm1,model='naive')