Description Usage Arguments Details Author(s) See Also Examples
Condenses MCMC results in an twDEMCPops
object to the specified cases.
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x 
twDEMCPops object 
boKeep 
either logical vector or numeric vector of indices of cases to keep 
... 

iPops 
integer vector: only these populations are subset, others are kept 
dropShortPops 
if set to TRUE, pops in iPops with less samples than to what 
components thin,Y,nGenBurnin
are kept, but may be meaningless after subsetting.
The class twDEMCPops encapsulates the result of a MCMC run of several populations each consisting of different chains.
It is described as result value of twDEMCBlockInt
.
The chains within each population have the same length. The chains of different populations, however, may have different length.
The chains within one population are not fully independent, because the proposals are based on
a common past chain values. In order to combine each population to a single chain, use stackChainsPop.twDEMCPops
.
In order to make all the chains the same length and create results as arrays across all populations (as class twDEMC
),
use function concatPops.twDEMCPops
.
There are several methods accessing properties of an object of the twDEMCPops
class:
number of generations: getNGen.twDEMCPops
number of samples (only one sample each thinning inteval): getNSamples.twDEMCPops
number of chains: getNChains.twDEMCPops
number of populations: getNPops.twDEMCPops
number of chains per population: getNChainsPop.twDEMCPops
number of parameters: getNParms.twDEMCPops
thinning interval: res$thin
space replicate that the poplation belongs to: getSpacesPop.twDEMCPops
number of space replicates: getNSpaces.twDEMCPops
number of blocks: getNBlocks.twDEMCPops
parameter bounds: getParBoundsPop.twDEMCPops
current temperature of streams: getCurrentTemp.twDEMCPops
temperatue at aggregated level: getCurrentBaseTemp.twDEMCPops
There are several methods to transform or subset the results of the twDEMCPops
class.
transforming to array representation across populations of type twDEMC
: concatPops.twDEMCPops
select subpopulations: subPops.twDEMCPops
select subset of cases: subset.twDEMCPops
(this function)
make populations the same length: squeeze.twDEMCPops
stack all the results of all chains to one big matrix: stackChains.twDEMCPops
thin all the chains: thin.twDEMCPops
combine several twDEMCPops results to a bigger set of populations: combineTwDEMCPops
combine populations for subspaces to bigger populations: stackPopsInSpace.twDEMCPops
combine MarkovChains of each population of a twDEMC to a single chain: stackChainsPop.twDEMCPops
There are several methods to utilize the functions of the coda package for the the twDEMCPops
class.
convert an twDEMCPops to a coda mcmc.list as.mcmc.list.twDEMCPops
applying a function to all of the chains: mcmcListApply
stack all the results of all chains to one big matrix: stackChains.mcmc.list
transforming parameters transOrigPopt.mcmc.list
Thomas Wutzler
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