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coda (version 0.10-1)
Output analysis and diagnostics for MCMC
Description
Output analysis and diagnostics for Markov Chain Monte Carlo simulations.
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Install
install.packages('coda')
Monthly Downloads
116,251
Version
0.10-1
License
GPL Version 2 or later.
Maintainer
Martyn Plummer
Last Published
January 31st, 2024
Functions in coda (0.10-1)
Search all functions
spectrum0.ar
Estimate spectral density at zero
codamenu
Main menu driver for the coda package
read.and.check
Read data interactively and check that it satisfies conditions
line
Simple linear regression example
read.coda.interactive
Read CODA output files interactively
spectrum0
Estimate spectral density at zero
Cramer
The Cramer-von Mises Distribution
coda.options
Options settings for the codamenu driver
crosscorr
Cross correlations for MCMC output
rejectionRate
Rejection Rate for Metropolis--Hastings chains
cumuplot
Cumulative quantile plot
varnames
Named dimensions of MCMC objects
heidel.diag
Heidelberger and Welch's convergence diagnostic
geweke.diag
Geweke's convergence diagnostic
effectiveSize
Effective sample size for estimating the mean
thin
Thinning interval
autocorr.diag
Autocorrelation function for Markov chains
mcpar
Mcpar attribute of MCMC objects
mcmc
Markov Chain Monte Carlo Objects
gelman.diag
Gelman and Rubin's convergence diagnostic
multi.menu
Choose multiple options from a menu
nchain
Dimensions of MCMC objects
crosscorr.plot
Plot image of correlation matrix
summary.mcmc
Summary statistics for Markov Chain Monte Carlo chains
bugs2jags
Convert WinBUGS data file to JAGS data file
gelman.plot
Gelman-Rubin-Brooks plot
raftery.diag
Raftery and Lewis's diagnostic
time.mcmc
Time attributes for mcmc objects
plot.mcmc
Summary plots of mcmc objects
window.mcmc
Time windows for mcmc objects
trellisplots
Trellis plots for mcmc objects
mcmcUpgrade
Upgrade mcmc objects in obsolete format
autocorr.plot
Plot autocorrelations for Markov Chains
autocorr
Autocorrelation function for Markov chains
HPDinterval
Highest Posterior Density intervals
mcmc.list
Replicated Markov Chain Monte Carlo Objects
mcmc.subset
Extract or replace parts of MCMC objects
read.openbugs
Read CODA output files produced by OpenBUGS
geweke.plot
Geweke-Brooks plot
batchSE
Batch Standard Error
read.coda
Read output files in CODA format
mcmc.convert
Conversions of MCMC objects
as.ts.mcmc
Coerce mcmc object to time series
densplot
Probability density function estimate from MCMC output
traceplot
Trace plot of MCMC output