Data Cloning
Description
Low level functions for implementing maximum likelihood estimating procedures for complex models using data cloning and Bayesian Markov chain Monte Carlo methods. Sequential and parallel MCMC support for JAGS, WinBUGS and OpenBUGS.
Main functions include:

dclone
,dcdim
,dciid
,dctr
: cloning R objects in various ways. 
jags.fit
,bugs.fit
: conveniently fit BUGS models.jags.parfit
andbugs.parfit
fits chains on parallel workers. 
dc.fit
: iterative model fitting by the data cloning algorithm.dc.parfit
is the parallelized version. 
dctable
,dcdiag
: helps evaluating data cloning convergence by descriptive statistics and diagnostic tools. (These are based on e.g.chisq.diag
andlambdamax.diag
.) 
coef.mcmc.list
,confint.mcmc.list.dc
,dcsd.mcmc.list
,quantile.mcmc.list
,vcov.mcmc.list.dc
,mcmcapply
,stack.mcmc.list
: methods formcmc.list
objects. 
write.jags.model
,clean.jags.model
,custommodel
: convenient functions for handlingBUGS
models. 
jagsModel
,codaSamples
: basic functions from rjags package rewrote to recognize data cloning attributes from data (parJagsModel
,parUpdate
,parCodaSamples
are the parallel versions).
Author(s)
Author: Peter Solymos
Maintainer: Peter Solymos, solymos@ualberta.ca
References
Forum: https://groups.google.com/forum/#!forum/dcloneusers
Issues: https://github.com/datacloning/dcmle/issues
Data cloning website: http://datacloning.org
Solymos, P., 2010. dclone: Data Cloning in R. The R Journal 2(2), 29–37. URL: http://journal.rproject.org/archive/20102/RJournal_20102_Solymos.pdf
Lele, S.R., B. Dennis and F. Lutscher, 2007. Data cloning: easy maximum likelihood estimation for complex ecological models using Bayesian Markov chain Monte Carlo methods. Ecology Letters 10, 551–563.
Lele, S. R., K. Nadeem and B. Schmuland, 2010. Estimability and likelihood inference for generalized linear mixed models using data cloning. Journal of the American Statistical Association 105, 1617–1625.