MachineShop (version 2.8.0)

settings: MachineShop Settings

Description

Allow the user to view or change global settings which affect default behaviors of functions in the MachineShop package.

Usage

settings(...)

Arguments

...

character names of settings to view, name = value pairs giving the values of settings to change, a vector of these, "reset" to restore all package defaults, or no arguments to view all settings. Partial matching of setting names is supported.

Value

The setting value if only one is specified to view. Otherwise, a list of the values of specified settings as they existed prior to any requested changes. Such a list can be passed as an argument to settings to restore their values.

Settings

control

function, function name, or call defining a default resampling method [default: "CVControl"].

cutoff

numeric (0, 1) threshold above which binary factor probabilities are classified as events and below which survival probabilities are classified [default: 0.5].

dist.Surv

character string specifying distributional approximations to estimated survival curves for predicting survival means. Choices are "empirical" for the Kaplan-Meier estimator, "exponential", or "weibull" (default).

dist.SurvProbs

character string specifying distributional approximations to estimated survival curves for predicting survival events/probabilities. Choices are "empirical" (default) for the Kaplan-Meier estimator, "exponential", or "weibull".

grid

size argument to Grid indicating the number of parameter-specific values to generate automatically for tuning of models that have pre-defined grids or a Grid function, function name, or call [default: 3].

max.print

number of models or data rows to show with print methods or Inf to show all [default: 10].

method.EmpiricalSurv

character string specifying the empirical method of estimating baseline survival curves for Cox proportional hazards-based models. Choices are "breslow", "efron" (default), or "fleming-harrington".

metrics.ConfusionMatrix

function, function name, or vector of these with which to calculate performance metrics for confusion matrices [default: c(Accuracy = "accuracy", Kappa = "kappa2", `Weighted Kappa` = "weighted_kappa2", Sensitivity = "sensitivity", Specificity = "specificity")].

metrics.factor

function, function name, or vector of these with which to calculate performance metrics for factor responses [default: c(Brier = "brier", Accuracy = "accuracy", Kappa = "kappa2", `Weighted Kappa` = "weighted_kappa2", `ROC AUC` = "roc_auc", Sensitivity = "sensitivity", Specificity = "specificity")].

metrics.matrix

function, function name, or vector of these with which to calculate performance metrics for matrix responses [default: c(RMSE = "rmse", R2 = "r2", MAE = "mae")].

metrics.numeric

function, function name, or vector of these with which to calculate performance metrics for numeric responses [default: c(RMSE = "rmse", R2 = "r2", MAE = "mae")].

metrics.Surv

function, function name, or vector of these with which to calculate performance metrics for survival responses [default: c(`C-Index` = "cindex", Brier = "brier", `ROC AUC` = "roc_auc", Accuracy = "accuracy")].

progress.resample

logical indicating whether to display a progress bar during resampling [default: TRUE]. Displayed only if a computing cluster is not registered or is registered with the doSNOW package.

require

names of installed packages to load during parallel execution of resampling algorithms [default: c("MachineShop", "survival", "recipes")].

reset

character names of settings to reset to their default values.

RHS.formula

non-modifiable character vector of operators and functions allowed in traditional formula specifications.

stat.Curve

function or character string naming a function to compute one summary statistic at each cutoff value of resampled metrics in performance curves, or NULL for resample-specific metrics [default: "base::mean"].

stat.Resamples

function or character string naming a function to compute one summary statistic to control the ordering of models in plots [default: "base::mean"].

stat.train

function or character string naming a function to compute one summary statistic on resampled performance metrics for input selection or tuning or for model selection or tuning [default: "base::mean"].

stats.PartialDependence

function, function name, or vector of these with which to compute partial dependence summary statistics [default: c(Mean = "base::mean")].

stats.Resamples

function, function name, or vector of these with which to compute summary statistics on resampled performance metrics [default: c(Mean = "base::mean", Median = "stats::median", SD = "stats::sd", Min = "base::min", Max = "base::max")].

verbose.resample

logical indicating whether to enable verbose messages when resampling [default: FALSE].

Examples

# NOT RUN {
## View all current settings
settings()

## Change settings
presets <- settings(control = "BootControl", grid = 10)

## View one setting
settings("control")

## View multiple settings
settings("control", "grid")

## Restore the previous settings
settings(presets)

# }