Description Usage Arguments Details Value Methods

When `nauf_pmmeans`

is used with Bayesian regressions, the
elements of the resulting `nauf.pmm.list`

have class
`nauf.pmm.stan`

.

1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 | ```
## S3 method for class 'nauf.pmm.stan'
summary(object, probs = c(0.025, 0.975),
type = c("link", "response"), ...)
## S3 method for class 'summ.nauf.pmm.stan'
print(x, row.names = FALSE, mcse = FALSE,
rhat = NULL, ...)
## S3 method for class 'nauf.pmm.stan'
as.array(x, ...)
## S3 method for class 'nauf.pmm.stan'
as.matrix(x, ...)
## S3 method for class 'nauf.pmm.stan'
print(x, ...)
## S3 method for class 'nauf.pmm.stan'
as.data.frame(x, row.names = NULL, optional = FALSE,
...)
## S3 method for class 'summ.nauf.pmm.stan'
as.data.frame(x, row.names = NULL,
optional = FALSE, ...)
``` |

`object` |
A |

`probs` |
A vector of quantiles to calculate for the estimates. The default is a 95 The median (0.5) is always added regardless of whether it is specified. |

`type` |
If |

`...` |
See the |

`x` |
Either a |

`row.names, optional` |
Changes from the defaults are ignored. |

`mcse` |
A logical indicating whether the Monte Carlo standard errors
should be printed (default |

`rhat` |
An optional logical indicating whether or not to print the
Gelman-Rubin R-hat statistic. If |

The `nauf.pmm.stan`

object is a list with the following elements.

- names
A data frame with the levels of each factor (or 'inc_1' for covariates), with one row for each element in the third dimension of

`samples`

.- contrasts
The fixed effects model matrix showing the contrasts applied to the regression coefficients (rows correspond to the

`names`

element).- samples
An array with three dimensions. The first corresponds to iterations, the second to chains, and the third to parameters (the same structure returned by

`as.array.stanfit`

).- family
The regression family.

- inv.lbl
The label of the inverse link (e.g. probability, rate, etc.).

- misc
A list with additional information based on the type of model.

The returned object depends on the function. See the 'Methods' section.

- summary
Returns a data frame with class

`summ.nauf.pmm.stan`

, with means, standard deviations, medians, mean absolute differences, the posterior probability that the estimate is greater than zero, quantiles specified in`probs`

, the effective sample size, Monte Carlo standard error, and Gelman-Rubin R-hat statistic. Additional arguments in`...`

are ignored. Quantiles, effective samples size, and Monte Carlo standard error, and R-hat statistics are computed using`monitor`

.For

`summ.nauf.pmm.stan`

objects, the data frame is printed, omitting the Monte Carlo standard error and R-hat statistic based on`mcse`

and`rhat`

. If the inverse link function was used, then a message indicating the response type is also printed. Additional arguments in`...`

are passed to`print.data.frame`

. For`nauf.pmm.stan`

objects, first`summary`

is called, passing along`...`

, and then print is called on the resulting`summ.nauf.pmm.stan`

, also passing along`...`

arguments.- as.data.frame
For

`summ.nauf.pmm.stan`

objects, removes the`data.frame`

contained in a`summ.nauf.pmm.stan`

. Additional arguments in`...`

are ignored. For`nauf.pmm.stan`

objects, first`summary`

is called, passing along`...`

, and then`as.data.frame`

is called on the resulting`summ.nauf.pmm.stan`

object, ignoring`...`

arugments.- as.array
Returns the

`samples`

element of a`nauf.pmm.stan`

object. Additional arguments in`...`

are ignored.- as.matrix
Returns the

`samples`

element of a`namf.pmm.stan`

object, flattening the array into a matrix such that the rows represent iterations ordered by chain and the columns represent parameters.

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