PENALTY-class {BSL} | R Documentation |

## S4 class “PENALTY”

### Description

This S4 class contains the penalty selection result from
function `selectPenalty`

. `show`

display the penalty
selection result. `plot`

plot the penalty selection result using
ggplot2.

### Usage

```
## S4 method for signature 'PENALTY'
show(object)
## S4 method for signature 'PENALTY,ANY'
plot(x, logscale = TRUE)
## S4 method for signature 'BSL'
getPenalty(object)
```

### Arguments

`object` |
The S4 object of class “PENALTY” to show. |

`x` |
The S4 object of class “PENALTY” to plot. |

`logscale` |
A logical argument whether the x-axis (penalty) should be log transformed. The
default is |

### Slots

`loglike`

A list of the log-likelihood values. The list contains multiple matrices (each corresponds to the result for a specific n value). The number of row of the matrix equals to the number of repeats

`M`

. The columns of the matrix stands for different penalty values.`n`

A vector of

`n`

, the number of simulations from the model per MCMC iteration for estimating the synthetic likelihood.`lambda`

A list, with each entry containing the vector of penalty values for the corresponding choice of

`n`

.`M`

The number of repeats used in estimating the standard deviation of the estimated log synthetic likelihood.

`sigma`

The standard deviation of the log synthetic likelihood estimator to aim for, usually a value between 1 and 2. This reflects the mixing of a Markov chain.

`model`

A “MODEL” object generated with function

`newModel`

. See`newModel`

.`stdLoglike`

A list contains the estimated standard deviations of log-likelihoods.

`penalty`

The vector stores the selected penalty values for each given

`n`

by choosing from the candidate`lambda`

list. The selected values produce closest standard deviations`stdLoglike`

to the target`sigma`

.`result`

The result data frame.

`call`

The original code used to run

`selectPenalty`

.

### See Also

`selectPenalty`

for the function that selects the
penalty parameter.

*BSL*version 3.2.5 Index]