/usr/lib/R/site-library/coda/INDEX is in r-cran-coda 0.18-1-1.
This file is owned by root:root, with mode 0o644.
The actual contents of the file can be viewed below.
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 | as.matrix.mcmc Conversions of MCMC objects
as.ts.mcmc Coerce mcmc object to time series
autocorr Autocorrelation function for Markov chains
autocorr.diag Autocorrelation function for Markov chains
autocorr.plot Plot autocorrelations for Markov Chains
batchSE Batch Standard Error
bugs2jags Convert WinBUGS data file to JAGS data file
codamenu Main menu driver for the coda package
coda.options Options settings for the codamenu driver
crosscorr Cross correlations for MCMC output
crosscorr.plot Plot image of correlation matrix
cumuplot Cumulative quantile plot
densityplot.mcmc Trellis plots for mcmc objects
densplot Probability density function estimate from MCMC
output
effectiveSize Effective sample size for estimating the mean
gelman.diag Gelman and Rubin's convergence diagnostic
gelman.plot Gelman-Rubin-Brooks plot
geweke.diag Geweke's convergence diagnostic
geweke.plot Geweke-Brooks plot
heidel.diag Heidelberger and Welch's convergence diagnostic
HPDinterval Highest Posterior Density intervals
line Simple linear regression example
mcmc Markov Chain Monte Carlo Objects
[.mcmc Extract or replace parts of MCMC objects
mcmc.list Replicated Markov Chain Monte Carlo Objects
mcmcUpgrade Upgrade mcmc objects in obsolete format
mcpar Mcpar attribute of MCMC objects
multi.menu Choose multiple options from a menu
nchain Dimensions of MCMC objects
pcramer The Cramer-von Mises Distribution
plot.mcmc Summary plots of mcmc objects
raftery.diag Raftery and Lewis's diagnostic
read.and.check Read data interactively and check that it
satisfies conditions
read.coda Read output files in CODA format
read.coda.interactive Read CODA output files interactively
read.openbugs Read CODA output files produced by OpenBUGS
rejectionRate Rejection Rate for Metropolis-Hastings chains
spectrum0 Estimate spectral density at zero
spectrum0.ar Estimate spectral density at zero
summary.mcmc Summary statistics for Markov Chain Monte Carlo
chains
thin Thinning interval
time.mcmc Time attributes for mcmc objects
traceplot Trace plot of MCMC output
varnames Named dimensions of MCMC objects
window.mcmc Time windows for mcmc objects
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