jagsresults: An internal function to summarise results from BUGS model

View source: R/jagsresults.R

jagsresultsR Documentation

An internal function to summarise results from BUGS model


This function hides missing data distribution from summary results of BUGS models


  regex = FALSE,
  invert = FALSE,
  probs = c(0.025, 0.25, 0.5, 0.75, 0.975),



The rjags, rjags.parallel, or mcmc.list object for which results will be printed.


Character vector or a regular expression pattern. The parameters for which results will be printed (unless invert is FALSE, in which case results for all parameters other than those given in params will be returned). If regex is FALSE, only those parameters that match params exactly will be returned. If regex is TRUE, param should be a character string giving the regular expression pattern to be matched.


If regex is TRUE, then param is expected to be a single string giving a text pattern to be matched. Parameters with names matching the pattern will be returned (unless invert is TRUE, which results in all parameters that do not match the pattern being returned). Text pattern matching uses regular expressions (regex).


Logical. If invert is TRUE, only those parameters that do not match elements of params will be returned.


A numeric vector of probabilities within range [0, 1], representing the sample quantiles to be calculated and returned.


If supplied, all columns other than n.eff will have their values rounded such that the most extreme value has the specified number of significant digits.


Additional arguments accepted by grep, e.g. perl=TRUE, to allow look-around pattern matching.


## Not run: 
## Data
N <- 100
temp <- runif(N)
rain <- runif(N)
wind <- runif(N)
a <- 0.13
beta.temp <- 1.3
beta.rain <- 0.86
beta.wind <- -0.44
sd <- 0.16
y <- rnorm(N, a + beta.temp*temp + beta.rain*rain + beta.wind*wind, sd)
dat <- list(N=N, temp=temp, rain=rain, wind=wind, y=y)

### bugs example

## Model
M <- function() {
  for (i in 1:N) {
    y[i] ~ dnorm(y.hat[i], sd^-2)
    y.hat[i] <- a + beta.temp*temp[i] + beta.rain*rain[i] + beta.wind*wind[i]
    resid[i] <- y[i] - y.hat[i]
  sd ~ dunif(0, 100)
  a ~ dnorm(0, 0.0001)
  beta.temp ~ dnorm(0, 0.0001)
  beta.rain ~ dnorm(0, 0.0001)
  beta.wind ~ dnorm(0, 0.0001)

## Fit model
jagsfit <- jags(dat, inits=NULL, 
                parameters.to.save=c('a', 'beta.temp', 'beta.rain', 
                                     'beta.wind', 'sd', 'resid'), 
                model.file=M, n.iter=10000)

## Output
# model summary

# Results for beta.rain only
jagsresults(x=jagsfit, param='beta.rain')

# Results for 'a' and 'sd' only
jagsresults(x=jagsfit, param=c('a', 'sd'))
jagsresults(x=jagsfit, param=c('a', 'sd'), 
            probs=c(0.01, 0.025, 0.1, 0.25, 0.5, 0.75, 0.9, 0.975))

# Results for all parameters including the string 'beta'
jagsresults(x=jagsfit, param='beta', regex=TRUE)

# Results for all parameters not including the string 'beta'
jagsresults(x=jagsfit, param='beta', regex=TRUE, invert=TRUE)

# Note that the above is NOT equivalent to the following, which returns all
# parameters that are not EXACTLY equal to 'beta'.
jagsresults(x=jagsfit, param='beta', invert=TRUE)

# Results for all parameters beginning with 'b' or including 'sd'.
jagsresults(x=jagsfit, param='^b|sd', regex=TRUE)

# Results for all parameters not beginning with 'beta'.
# This is equivalent to using param='^beta' with invert=TRUE and regex=TRUE
jagsresults(x=jagsfit, param='^(?!beta)', regex=TRUE, perl=TRUE)

## End(Not run)

missingHE documentation built on March 31, 2023, 10:27 p.m.