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

Functions

boa.acf Man page
boa.batchMeans Man page
boa.chain Man page
boa.chain.add Man page
boa.chain.collapse Man page
boa.chain.del Man page
boa.chain.eval Man page
boa.chain.gandr Man page
boa.chain.import Man page
boa.chain.info Man page
boa.chain.reset Man page
boa.chain.subset Man page
boa.chain.support Man page
boa.getiter Man page
boa.getparms Man page
boa.geweke Man page
boa.gewekePwr Man page
boa.handw Man page
boa.hpd Man page
boa.importASCII Man page
boa.importBUGS Man page
boa.importMatrix Man page
boa.init Man page
boa.iter Man page
boa.license Man page
boa.load Man page
boa.menu Man page
boa.par Man page
boa.pardesc Man page
boa.plot Man page
boa.plot.acf Man page
boa.plot.bandg Man page
boa.plot.close Man page
boa.plot.density Man page
boa.plot.gandr Man page
boa.plot.geweke Man page
boa.plot.history Man page
boa.plot.open Man page
boa.plot.par Man page
boa.plot.title Man page
boa.plot.trace Man page
boa.pnames Man page
boa.print.acf Man page
boa.print.cor Man page
boa.print.gandr Man page
boa.print.geweke Man page
boa.print.handw Man page
boa.print.hpd Man page
boa.print.info Man page
boa.print.par Man page
boa.print.randl Man page
boa.print.stats Man page
boa.quit Man page
boa.randl Man page
boa.save Man page
boa.sortiter Man page
boa.sortparms Man page
boa.stats Man page
boa.transform Man page
boa.version Man page
colVars Man page
line Man page
line1 Man page
line2 Man page

Files

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.

Please suggest features or report bugs with the GitHub issue tracker.

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