dclone: Data Cloning and MCMC Tools for Maximum Likelihood Methods

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.

AuthorPeter Solymos
Date of publication2016-03-12 08:51:14
MaintainerPeter Solymos <solymos@ualberta.ca>
LicenseGPL-2
Version2.1-2
https://groups.google.com/forum/#!forum/dclone-users, http://datacloning.org

View on CRAN

Man pages

bugs.fit: Fit BUGS models with cloned data

bugs.parfit: Parallel computing with WinBUGS/OpenBUGS

clusterSize: Optimizing the number of workers

clusterSplitSB: Size balancing

codaSamples: Generate posterior samples in mcmc.list format

coef.mcmc.list: Methods for the 'mcmc.list' class

dc.fit: Iterative model fitting with data cloning

dcFit: Internal function for iterative model fitting with data...

dclone: Cloning R objects

DcloneEnv: Manipulating dclone environments

dclone-package: Data Cloning

dcoptions: Setting Options

dc.parfit: Parallel model fitting with data cloning

dctable: Retrieve descriptive statistics from fitted objects to...

errlines: Plot error bars

evalParallelArgument: Evaluates parallel argument

jags.fit: Fit JAGS models with cloned data

jagsModel: Create a JAGS model object

jags.parfit: Parallel computing with JAGS

lambdamax.diag: Data Cloning Diagnostics

make.symmetric: Make a square matrix symmetric by averaging.

mclapplySB: Size balancing version of mclapply

mcmcapply: Calculations on 'mcmc.list' objects

nclones: Number of Clones

ovenbird: Abundances of ovenbird in Alberta

pairs.mcmc.list: Scatterplot Matrices for 'mcmc.list' Objects

parallel.inits: Parallel RNGs for initial values

parCodaSamples: Generate posterior samples in 'mcmc.list' format on parallel...

parDosa: Parallel wrapper function to call from within a function

parJagsModel: Create a JAGS model object on parallel workers

parLoadModule: Dynamically load JAGS modules on parallel workers

parSetFactory: Advanced control over JAGS on parallel workers

parUpdate: Update jags models on parallel workers

regmod: Exemplary MCMC list object

update.mcmc.list: Automatic updating of an MCMC object

write.jags.model: Write and remove model file

Files in this package

dclone
dclone/inst
dclone/inst/CITATION
dclone/inst/ChangeLog
dclone/NAMESPACE
dclone/data
dclone/data/ovenbird.rda
dclone/data/regmod.rda
dclone/R
dclone/R/lambdamax.diag.mcmc.list.R dclone/R/dclone.R dclone/R/bugs.fit.R dclone/R/confint.mcmc.list.dc.R dclone/R/quantile.mcmc.list.R dclone/R/clean.jags.model.R dclone/R/extractdcdiag.default.R dclone/R/pairs.mcmc.list.R dclone/R/print.custommodel.R dclone/R/dcFit.R dclone/R/parListModules.R dclone/R/DcloneEnv.R dclone/R/chisq.diag.mcmc.list.R dclone/R/dctable.R dclone/R/dc.fit.R dclone/R/parListFactories.R dclone/R/print.mcmc.list.R dclone/R/dclone.environment.R dclone/R/nclones.list.R dclone/R/parallel.inits.R dclone/R/clusterSplitSB.R dclone/R/update.mcmc.list.R dclone/R/summary.mcmc.list.dc.R dclone/R/dctr.R dclone/R/dcsd.R dclone/R/mclapplySB.R dclone/R/parLapplySB.R dclone/R/extractdctable.default.R dclone/R/parLoadModule.R dclone/R/dclone.default.R dclone/R/parSetFactory.R dclone/R/print.lambdamax.diag.R dclone/R/dcsd.mcmc.list.R dclone/R/dc.parfit.R dclone/R/dclone.dcdim.R dclone/R/plot.dctable.R dclone/R/nclones.default.R dclone/R/dciid.R dclone/R/lambdamax.diag.R dclone/R/codaSamples.R dclone/R/dctable.default.R dclone/R/parUnloadModule.R dclone/R/mcmcapply.R dclone/R/evalParallelArgument.R dclone/R/plot.dcdiag.R dclone/R/parLapplySLB.R dclone/R/plot.chisq.diag.R dclone/R/errlines.default.R dclone/R/parUpdate.R dclone/R/errlines.R dclone/R/quantile.mcmc.R dclone/R/jags.fit.R dclone/R/write.jags.model.R dclone/R/bugs.parfit.R dclone/R/dcdim.R dclone/R/parCodaSamples.R dclone/R/nclones.R dclone/R/stack.mcmc.list.R dclone/R/print.chisq.diag.R dclone/R/custommodel.R dclone/R/extractdcdiag.R dclone/R/dclone.list.R dclone/R/vcov.mcmc.list.dc.R dclone/R/updated.model.mcmc.list.dc.R dclone/R/updated.model.mcmc.list.R dclone/R/coef.mcmc.list.R dclone/R/print.summary.mcmc.list.dc.R dclone/R/Extract.mcmc.list.dc.R dclone/R/dclone.dctr.R dclone/R/dcdiag.R dclone/R/as.mcmc.list.bugs.R dclone/R/jags.parfit.R dclone/R/clusterSize.R dclone/R/plotClusterSize.R dclone/R/coef.mcmc.R dclone/R/vcov.mcmc.R dclone/R/parDosa.R dclone/R/extractdctable.R dclone/R/updated.model.R dclone/R/vcov.mcmc.list.R dclone/R/dcoptions.R dclone/R/dcdiag.default.R dclone/R/zzz.R dclone/R/parJagsModel.R dclone/R/dclone.dciid.R dclone/R/jagsModel.R dclone/R/make.symmetric.R dclone/R/chisq.diag.R
dclone/MD5
dclone/DESCRIPTION
dclone/man
dclone/man/parDosa.Rd dclone/man/parallel.inits.Rd dclone/man/bugs.fit.Rd dclone/man/dctable.Rd dclone/man/dc.fit.Rd dclone/man/parJagsModel.Rd dclone/man/jagsModel.Rd dclone/man/dc.parfit.Rd dclone/man/dclone-package.Rd dclone/man/clusterSize.Rd dclone/man/lambdamax.diag.Rd dclone/man/parLoadModule.Rd dclone/man/write.jags.model.Rd dclone/man/parSetFactory.Rd dclone/man/ovenbird.Rd dclone/man/make.symmetric.Rd dclone/man/parCodaSamples.Rd dclone/man/dcoptions.Rd dclone/man/DcloneEnv.Rd dclone/man/dclone.Rd dclone/man/update.mcmc.list.Rd dclone/man/parUpdate.Rd dclone/man/pairs.mcmc.list.Rd dclone/man/coef.mcmc.list.Rd dclone/man/codaSamples.Rd dclone/man/mclapplySB.Rd dclone/man/errlines.Rd dclone/man/bugs.parfit.Rd dclone/man/jags.fit.Rd dclone/man/dcFit.Rd dclone/man/clusterSplitSB.Rd dclone/man/nclones.Rd dclone/man/regmod.Rd dclone/man/jags.parfit.Rd dclone/man/mcmcapply.Rd dclone/man/evalParallelArgument.Rd

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

All documentation is copyright its authors; we didn't write any of that.