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dclone (version 2.0-0)

Data Cloning and MCMC Tools for Maximum Likelihood Methods

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.

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Version

Install

install.packages('dclone')

Monthly Downloads

681

Version

2.0-0

License

GPL-2

Maintainer

Peter Solymos

Last Published

September 30th, 2013

Functions in dclone (2.0-0)

dc.parfit

Parallel model fitting with data cloning
clusterSplitSB

Size balancing
dctable

Retrieve descriptive statistics from fitted objects to evaluate convergence
.dcFit

Internal function for iterative model fitting with data cloning
bugs.fit

Fit BUGS models with cloned data
dcoptions

Setting Options
mcmc.list-methods

Methods for the 'mcmc.list' class
jagsModel

Create a JAGS model object
dclone-package

Data Cloning
mclapplySB

Size balancing version of mclapply
bugs.parfit

Parallel computing with WinBUGS/OpenBUGS
evalParallelArgument

Evaluates parallel argument
jags.fit

Fit JAGS models with cloned data
codaSamples

Generate posterior samples in mcmc.list format
dclone

Cloning R objects
mcmcapply

Calculations on 'mcmc.list' objects
make.symmetric

Make a square matrix symmetric by averaging.
clusterSize

Optimizing the number of workers
parCodaSamples

Generate posterior samples in 'mcmc.list' format on parallel workers
regmod

Exemplary MCMC list object
errlines

Plot error bars
nclones

Number of Clones
dc.fit

Iterative model fitting with data cloning
write.jags.model

Write and remove model file
parUpdate

Update jags models on parallel workers
snowWrapper

Parallel wrapper function to call from within a function
lambdamax.diag

Data Cloning Diagnostics
parallel.inits

Parallel RNGs for initial values
pairs.mcmc.list

Scatterplot Matrices for 'mcmc.list' Objects
update.mcmc.list

Automatic updating of an MCMC object
parLoadModule

Dynamically load JAGS modules on parallel workers
parJagsModel

Create a JAGS model object on parallel workers
parSetFactory

Advanced control over JAGS on parallel workers
DcloneEnv

Manipulating dclone environments
parDosa

Parallel wrapper function to call from within a function
ovenbird

Abundances of ovenbird in Alberta
jags.parfit

Parallel computing with JAGS