boa: Bayesian Output Analysis Program (BOA) for MCMC

A menu-driven program and library of functions for carrying out convergence diagnostics and statistical and graphical analysis of Markov chain Monte Carlo sampling output.

AuthorBrian J. Smith [aut, cre]
Date of publication2016-06-23 01:29:05
MaintainerBrian J. Smith <brian-j-smith@uiowa.edu>
LicenseGPL-2
Version1.1.8-2
http://www.jstatsoft.org/v21/i11

View on CRAN

Man pages

boa.acf: Autocorrelation Function

boa.batchMeans: Batch Means

boa.chain: Session Lists of MCMC Sequences

boa.chain.add: Add MCMC Sequence

boa.chain.collapse: Concatenate MCMC Sequences

boa.chain.del: Delete MCMC Sequences

boa.chain.eval: Formulate New Parameter

boa.chain.gandr: Gelman and Rubin Convergence Diagnostics

boa.chain.import: Import MCMC Sequence

boa.chain.info: Information about MCMC Sequences

boa.chain.reset: Reset MCMC Sequences

boa.chain.subset: Subset MCMC Sequences

boa.chain.support: Set Support for Parameters

boa.getiter: Extract Iterations

boa.getparms: Extract Parameters

boa.geweke: Geweke Convergence Diagnostics

boa.gewekePwr: Geweke Spectral Density Estimation

boa.handw: Heidelberger and Welch Convergence Diagnostics

boa.hpd: Highest Probability Density Interval

boa.importASCII: Import ASCII Data

boa.importBUGS: Import BUGS Data

boa.importMatrix: Import ASCII Data

boa.init: Start Session

boa.iter: Extract Iteration Numbers

boa.license: Licensing Information

boa.load: Load Session

boa.menu: Interactive BOA Menu

boa.par: Global Parameters

boa.pardesc: Global Parameters Descriptions

boa.plot: Plot Parameters in MCMC Sequences

boa.plot.acf: Plot Autocorrelation Function

boa.plot.bandg: Plot Brooks and Gelman Multivariate Shrink Factors

boa.plot.close: Close Graphics Windows

boa.plot.density: Plot Density Functions

boa.plot.gandr: Plot Gelman and Rubin Shrink Factors

boa.plot.geweke: Plot Geweke Convergence Diagnostics

boa.plot.history: Plot Parameter Estimation Histories

boa.plot.open: Open Graphics Windows

boa.plot.par: Set Plotting Parameters

boa.plot.title: Add Plot Title

boa.plot.trace: Plot Trace Histories

boa.pnames: Extract Parameter Names

boa.print.acf: Print Autocorrelation Functions

boa.print.cor: Print Correlation Matrices

boa.print.gandr: Print Gelman and Rubin Convergence Diagnostics

boa.print.geweke: Print Geweke Convergence Diagnostics

boa.print.handw: Print Heidelberger and Welch Convergence Diagnostics

boa.print.hpd: Print Highest Probability Density Intervals

boa.print.info: Print Information about MCMC Sequences

boa.print.par: Print Global Parameters' Descriptions and Current Values

boa.print.randl: Print Raftery and Lewis Convergence Diagnostics

boa.print.stats: Print Summary Statistics

boa.quit: Quit Session

boa.randl: Raftery and Lewis Convergence Diagnostics

boa.save: Save Session

boa.sortiter: Sort by Iteration Numbers

boa.sortparms: Sort by Parameter Names

boa.stats: Summary Statistics

boa.transform: Transform Variables

boa.version: Version Information

colVars: Column Variances

line: BUGS Line Example

Files in this package

boa
boa/inst
boa/inst/CITATION
boa/NAMESPACE
boa/data
boa/data/line.rda
boa/R
boa/R/boa.getparms.R boa/R/boa.license.R boa/R/boa.importASCII.R boa/R/boa.menu.analysis.R boa/R/boa.transform.R boa/R/boa.plot.title.R boa/R/boa.chain.del.R boa/R/colVars.R boa/R/boa.plot.gandr.R boa/R/boa.stats.R boa/R/boa.chain.info.R boa/R/boa.plot.geweke.R boa/R/boa.plot.open.R boa/R/boa.print.randl.R boa/R/boa.chain.collapse.R boa/R/boa.menu.plotdesc.R boa/R/boa.print.stats.R boa/R/boa.print.info.R boa/R/boa.chain.subset.R boa/R/boa.print.acf.R boa/R/boa.randl.R boa/R/boa.print.gandr.R boa/R/boa.version.R boa/R/boa.plot.par.R boa/R/boa.print.handw.R boa/R/boa.chain.import.R boa/R/boa.plot.close.R boa/R/boa.gewekePwr.R boa/R/boa.acf.R boa/R/boa.importMatrix.R boa/R/boa.menu.window.R boa/R/boa.getiter.R boa/R/boa.plot.acf.R boa/R/boa.menu.plot.R boa/R/boa.menu.parms.R boa/R/boa.menu.data.R boa/R/boa.plot.R boa/R/boa.print.geweke.R boa/R/boa.menu.stats.R boa/R/boa.chain.add.R boa/R/boa.chain.eval.R boa/R/boa.batchMeans.R boa/R/boa.print.hpd.R boa/R/boa.menu.import.R boa/R/boa.hpd.R boa/R/boa.sortparms.R boa/R/boa.menu.plotcoda.R boa/R/boa.chain.gandr.R boa/R/boa.plot.history.R boa/R/boa.print.cor.R boa/R/boa.importBUGS.R boa/R/boa.menu.file.R boa/R/boa.plot.bandg.R boa/R/boa.chain.support.R boa/R/boa.pardesc.R boa/R/spectrum0.R boa/R/boa.geweke.R boa/R/boa.handw.R boa/R/boa.sortiter.R boa/R/boa.getinput.R boa/R/boa.chain.reset.R boa/R/boa.print.par.R boa/R/boa.plot.density.R boa/R/boa.menu.par.R boa/R/boa.core.R boa/R/boa.menu.R boa/R/boa.menu.coda.R boa/R/boa.pnames.R boa/R/boa.plot.trace.R boa/R/boa.menu.chains.R boa/R/boa.menu.setpar.R boa/R/boa.iter.R
boa/MD5
boa/DESCRIPTION
boa/man
boa/man/boa.license.Rd boa/man/boa.par.Rd boa/man/boa.plot.close.Rd boa/man/boa.print.cor.Rd boa/man/boa.plot.density.Rd boa/man/boa.print.handw.Rd boa/man/boa.gewekePwr.Rd boa/man/boa.sortiter.Rd boa/man/boa.chain.support.Rd boa/man/boa.plot.title.Rd boa/man/boa.plot.Rd boa/man/boa.print.gandr.Rd boa/man/boa.plot.trace.Rd boa/man/boa.print.geweke.Rd boa/man/boa.chain.eval.Rd boa/man/boa.plot.par.Rd boa/man/boa.sortparms.Rd boa/man/boa.plot.gandr.Rd boa/man/boa.chain.subset.Rd boa/man/boa.acf.Rd boa/man/boa.importASCII.Rd boa/man/boa.plot.open.Rd boa/man/boa.getparms.Rd boa/man/boa.geweke.Rd boa/man/boa.init.Rd boa/man/boa.plot.geweke.Rd boa/man/boa.chain.collapse.Rd boa/man/boa.quit.Rd boa/man/boa.hpd.Rd boa/man/boa.version.Rd boa/man/boa.chain.del.Rd boa/man/boa.chain.import.Rd boa/man/boa.print.info.Rd boa/man/boa.batchMeans.Rd boa/man/boa.iter.Rd boa/man/line.Rd boa/man/boa.getiter.Rd boa/man/boa.plot.acf.Rd boa/man/boa.importMatrix.Rd boa/man/boa.plot.history.Rd boa/man/boa.save.Rd boa/man/boa.print.hpd.Rd boa/man/boa.transform.Rd boa/man/boa.chain.Rd boa/man/boa.stats.Rd boa/man/boa.load.Rd boa/man/colVars.Rd boa/man/boa.print.acf.Rd boa/man/boa.pardesc.Rd boa/man/boa.chain.reset.Rd boa/man/boa.chain.add.Rd boa/man/boa.print.par.Rd boa/man/boa.print.stats.Rd boa/man/boa.menu.Rd boa/man/boa.plot.bandg.Rd boa/man/boa.chain.info.Rd boa/man/boa.importBUGS.Rd boa/man/boa.randl.Rd boa/man/boa.pnames.Rd boa/man/boa.chain.gandr.Rd boa/man/boa.handw.Rd boa/man/boa.print.randl.Rd

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

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