R: Read output files in CODA format

read.coda {coda} | R Documentation

## Read output files in CODA format

### Description

`read.coda` reads Markov Chain Monte Carlo output in the CODA format produced by OpenBUGS and JAGS. By default, all of the data in the file is read, but the arguments `start`, `end` and `thin` may be used to read a subset of the data. If the arguments given to `start`, `end` or `thin` are incompatible with the data, they are ignored.

### Usage

    read.coda(output.file, index.file, start, end, thin, quiet=FALSE)
    read.jags(file = "jags.out", start, end, thin, quiet=FALSE)

### Arguments

`output.file` | The name of the file containing the monitored output
`index.file` | The name of the file containing the index, showing which rows of the output file correspond to which variables
`file` | For JAGS output, the name of the output file. The extension ".out" may be omitted. There must be a corresponding ".ind" file with the same file stem.
`start` | First iteration of chain
`end` | Last iteration of chain
`thin` | Thinning interval for chain
`quiet` | Logical flag. If true, a progress summary will be printed

### Value

An object of class `mcmc` containing a representation of the data in the file.

### Author(s)

Karen Vines, Martyn Plummer

### References

Spiegelhalter DJ, Thomas A, Best NG and Gilks WR (1995). BUGS: Bayesian inference Using Gibbs Sampling, Version 0.50. MRC Biostatistics Unit, Cambridge.

### See Also

`mcmc`, `read.coda.interactive`, `read.openbugs`.

[Package coda version 0.19-1 Index]