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boa (version 1.1.7-2)

Bayesian Output Analysis Program (BOA) for MCMC

Description

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.

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Version

Install

install.packages('boa')

Monthly Downloads

378

Version

1.1.7-2

License

GPL-2

Maintainer

Brian Smith

Last Published

May 2nd, 2008

Functions in boa (1.1.7-2)

boa.plot.par

Set Plotting Parameters
boa.hpd

Highest Probability Density Interval
boa.chain.subset

Subset MCMC Sequences
boa.chain.import

Import MCMC Sequence
boa.print.acf

Print Autocorrelation Functions
boa.importASCII

Import ASCII Data
boa.chain.del

Delete MCMC Sequences
boa.getparms

Extract Parameters
boa.menu

Interactive BOA Menu
boa.chain.info

Information about MCMC Sequences
boa.getiter

Extract Iterations
boa.importBUGS

Import BUGS Data
boa.plot.bandg

Plot Brooks and Gelman Multivariate Shrink Factors
boa.pnames

Extract Parameter Names
boa.plot.open

Open Graphics Windows
boa.plot.geweke

Plot Geweke Convergence Diagnostics
boa.par

Global Parameters
boa.print.handw

Print Heidelberger and Welch Convergence Diagnostics
boa.plot.close

Close Graphics Windows
boa.chain

Session Lists of MCMC Sequences
boa.plot.trace

Plot Trace Histories
boa.pardesc

Global Parameters Descriptions
boa.sortiter

Sort by Iteration Numbers
boa.print.info

Print Information about MCMC Sequences
boa.plot.gandr

Plot Gelman and Rubin Shrink Factors
boa.save

Save Session
boa.importMatrix

Import ASCII Data
boa.print.randl

Print Raftery and Lewis Convergence Diagnostics
boa.plot.acf

Plot Autocorrelation Function
boa.randl

Raftery and Lewis Convergence Diagnostics
boa.chain.eval

Formulate New Parameter
boa.plot

Plot Parameters in MCMC Sequences
boa.acf

Autocorrelation Function
boa.load

Load Session
boa.chain.gandr

Gelman and Rubin Convergence Diagnostics
boa.chain.collapse

Concatenate MCMC Sequences
boa.chain.support

Set Support for Parameters
boa.gewekePwr

Geweke Spectral Density Estimation
boa.print.stats

Print Summary Statistics
boa.init

Start Session
colVars

Column Variances
boa.print.geweke

Print Geweke Convergence Diagnostics
boa.batchMeans

Batch Means
boa.chain.add

Add MCMC Sequence
boa.print.gandr

Print Gelman and Rubin Convergence Diagnostics
boa.iter

Extract Iteration Numbers
boa.print.cor

Print Correlation Matrices
boa.quit

Quit Session
boa.print.hpd

Print Highest Probability Density Intervals
boa.sortparms

Sort by Parameter Names
boa.stats

Summary Statistics
boa.plot.history

Plot Parameter Estimation Histories
boa.geweke

Geweke Convergence Diagnostics
boa.plot.density

Plot Density Functions
boa.plot.title

Add Plot Title
boa.license

Licensing Information
boa.transform

Transform Variables
boa.print.par

Print Global Parameters' Descriptions and Current Values
boa.version

Version Information
boa.chain.reset

Reset MCMC Sequences
boa.handw

Heidelberger and Welch Convergence Diagnostics
line

BUGS Line Example