BRugs: Interface to the 'OpenBUGS' MCMC Software

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Fully-interactive R interface to the 'OpenBUGS' software for Bayesian analysis using MCMC sampling. Runs natively and stably in 32-bit R under Windows. Versions running on Linux and on 64-bit R under Windows are in "beta" status and less efficient.

Author
OpenBUGS was developed by Andrew Thomas, Dave Lunn, David Spiegelhalter and Nicky Best. R interface developed by Uwe Ligges, Sibylle Sturtz, Andrew Gelman, Gregor Gorjanc and Chris Jackson. Linux port and most recent developments by Chris Jackson.
Date of publication
2015-12-16 09:36:46
Maintainer
Uwe Ligges <ligges@statistik.tu-dortmund.de>
License
GPL-2
Version
0.8-6
URLs

View on CRAN

Man pages

bgr.point
Internal functions (to support plotting the Gelman-Rubin...
BRugs
Introduction to BRugs
BRugsFit
BRugs' meta function
buffer
Reading OpenBUGS buffer file
bugs.data
Writing input for OpenBUGS
bugs.inits
Writing input for OpenBUGS
buildMCMC
Generating mcmc.list objects for package coda
dic
DIC
dimensions
Dimension of BUGS variables
get.chain
Current chain to be initialized
get.num.chains
Number of chains
help.WinBUGS
WinBUGS documentation
info.memory
Show memory usage
info.modules
Loaded modules
info.node
Node information
info.updaters
Information on MCMC updaters
model.adaptivePhase
Getting length of adaptive phase
model.check
Checking the model file
model.compile
Compiling the model
model.data
Loading the data
model.factory
Enable and disable factories to create updaters
model.gen.inits
Generating initial values
model.inits
Loading initial values
model.iteration
Returns number of iterations
model.names
Get variable names in model
model.precision
Setting precision for prec figures
model.RN
State of Random Number Generator
model.save.state
Save the model's current state
model.setAP
Changing settings of updating algorithms
model.setWD
Set working directory
model.update
Updating the model
plot.autoC
Plot autocorrelation function for a scalar variable
plot.bgr
Plot the Gelman-Rubin convergence statistic for a scalar...
plot.density
Plot density estimate or histogram of a scalar variable
plot.history
Trace of a scalar variable
ranks
Calculation of ranks
rats
ratsdata example
samples.autoC
Plot autocorrelation function
samples.bgr
Plot the Gelman-Rubin convergence statistic
samples.clear
Clear recorded values
samples.coda
Writing files in CODA format
samples.correl
Correlation
samples.density
Plot density estimate or histogram
samples.get
Get settings used for calculations
samples.history
Trace of a variable
samples.monitors
Names of monitored scalar variables
samples.sample
Stored values
samples.set
Start recording
samples.setting
Change settings used for calculations
samples.size
Size of the stored sample
samples.stats
Calculate summary statistics
set.values
Setting current values
summary
Summary of MCMC simulation
unix/loadOpenBUGS
Load OpenBUGS from given directory
windows/loadOpenBUGS
Load OpenBUGS from given directory
write.datafile
Write data for OpenBUGS - intended for internal use only
write.model
Creating an OpenBUGS model file

Files in this package

BRugs
BRugs/inst
BRugs/inst/CITATION
BRugs/configure.ac
BRugs/tests
BRugs/tests/examples.Rout.save
BRugs/tests/test.sh
BRugs/tests/local.R
BRugs/tests/functions.Rout.save
BRugs/tests/functions.R
BRugs/tests/BRugs.Rout.save
BRugs/tests/BRugs.R
BRugs/tests/examples.R
BRugs/tests/examples.stats.R
BRugs/src
BRugs/src/BugsHelper.c
BRugs/src/Makefile.win
BRugs/src/Makevars.in
BRugs/NAMESPACE
BRugs/NEWS
BRugs/data
BRugs/data/ratsinits.RData
BRugs/data/ratsdata.RData
BRugs/R
BRugs/R/model.names.R
BRugs/R/buffer.R
BRugs/R/plot.autoC.R
BRugs/R/summary.set.R
BRugs/R/plot.bgr.R
BRugs/R/plot.density.R
BRugs/R/model.adaptivePhase.R
BRugs/R/summary.clear.R
BRugs/R/ranks.clear.R
BRugs/R/samples.set.thin.R
BRugs/R/ranks.set.R
BRugs/R/model.data.R
BRugs/R/samples.set.end.R
BRugs/R/samples.size.R
BRugs/R/BRugsFit.R
BRugs/R/model.iteration.R
BRugs/R/info.memory.R
BRugs/R/model.update.R
BRugs/R/get.chain.R
BRugs/R/samples.clear.R
BRugs/R/samples.correl.R
BRugs/R/dimensions.R
BRugs/R/model.precision.R
BRugs/R/info.node.R
BRugs/R/buildMCMC.R
BRugs/R/samples.get.lastChain.R
BRugs/R/model.setWD.R
BRugs/R/model.setIts.R
BRugs/R/bgr.grid.R
BRugs/R/model.inits.R
BRugs/R/model.setOR.R
BRugs/R/samples.stats.R
BRugs/R/get.num.chains.R
BRugs/R/samples.get.thin.R
BRugs/R/samples.history.R
BRugs/R/dic.clear.R
BRugs/R/samples.coda.R
BRugs/R/model.setAP.R
BRugs/R/dic.set.R
BRugs/R/dic.stats.R
BRugs/R/windows
BRugs/R/windows/findOpenBUGS.R
BRugs/R/windows/zzz.i386.R
BRugs/R/windows/internal.R
BRugs/R/windows/help.R
BRugs/R/windows/zzz.x64.R
BRugs/R/windows/zzz.R
BRugs/R/samples.get.end.R
BRugs/R/bugs.data.R
BRugs/R/model.save.state.R
BRugs/R/formatdata.R
BRugs/R/model.getRN.R
BRugs/R/info.modules.R
BRugs/R/write.model.R
BRugs/R/model.factory.R
BRugs/R/samples.get.beg.R
BRugs/R/samples.autoC.R
BRugs/R/internal.R
BRugs/R/model.check.R
BRugs/R/plot.history.R
BRugs/R/info.updaters.R
BRugs/R/samples.set.R
BRugs/R/samples.set.beg.R
BRugs/R/samples.get.firstChain.R
BRugs/R/write.datafile.R
BRugs/R/unix
BRugs/R/unix/zzz.R.in
BRugs/R/unix/internal.R
BRugs/R/unix/help.R
BRugs/R/unix/zzz.R
BRugs/R/samples.bgr.R
BRugs/R/summary.stats.R
BRugs/R/ranks.stats.R
BRugs/R/samples.set.lastChain.R
BRugs/R/model.gen.inits.R
BRugs/R/bgr.point.R
BRugs/R/samples.sample.R
BRugs/R/model.compile.R
BRugs/R/model.setRN.R
BRugs/R/samples.set.firstChain.R
BRugs/R/bugs.inits.R
BRugs/R/samples.monitors.R
BRugs/R/samples.density.R
BRugs/R/zzz.R
BRugs/R/set.values.R
BRugs/MD5
BRugs/DESCRIPTION
BRugs/configure
BRugs/man
BRugs/man/model.iteration.Rd
BRugs/man/bugs.inits.Rd
BRugs/man/samples.correl.Rd
BRugs/man/model.setAP.Rd
BRugs/man/set.values.Rd
BRugs/man/rats.Rd
BRugs/man/model.compile.Rd
BRugs/man/info.memory.Rd
BRugs/man/samples.set.Rd
BRugs/man/samples.sample.Rd
BRugs/man/samples.setting.Rd
BRugs/man/get.num.chains.Rd
BRugs/man/model.update.Rd
BRugs/man/bgr.point.Rd
BRugs/man/samples.clear.Rd
BRugs/man/buffer.Rd
BRugs/man/model.RN.Rd
BRugs/man/BRugsFit.Rd
BRugs/man/model.inits.Rd
BRugs/man/BRugs.Rd
BRugs/man/windows
BRugs/man/windows/loadOpenBUGS.Rd
BRugs/man/dimensions.Rd
BRugs/man/bugs.data.Rd
BRugs/man/info.modules.Rd
BRugs/man/samples.stats.Rd
BRugs/man/model.adaptivePhase.Rd
BRugs/man/model.names.Rd
BRugs/man/samples.size.Rd
BRugs/man/samples.monitors.Rd
BRugs/man/samples.get.Rd
BRugs/man/buildMCMC.Rd
BRugs/man/plot.bgr.Rd
BRugs/man/dic.Rd
BRugs/man/samples.history.Rd
BRugs/man/unix
BRugs/man/unix/loadOpenBUGS.Rd
BRugs/man/model.setWD.Rd
BRugs/man/model.check.Rd
BRugs/man/write.datafile.Rd
BRugs/man/model.data.Rd
BRugs/man/samples.autoC.Rd
BRugs/man/ranks.Rd
BRugs/man/plot.density.Rd
BRugs/man/info.node.Rd
BRugs/man/plot.autoC.Rd
BRugs/man/write.model.Rd
BRugs/man/get.chain.Rd
BRugs/man/plot.history.Rd
BRugs/man/info.updaters.Rd
BRugs/man/model.factory.Rd
BRugs/man/model.precision.Rd
BRugs/man/samples.density.Rd
BRugs/man/summary.Rd
BRugs/man/samples.bgr.Rd
BRugs/man/model.save.state.Rd
BRugs/man/help.WinBUGS.Rd
BRugs/man/model.gen.inits.Rd
BRugs/man/samples.coda.Rd
BRugs/configure.win