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Usage

fsi(
  task,
  learner,
  resampling,
  measures = NULL,
  terminator,
  store_benchmark_result = TRUE,
  store_models = FALSE,
  check_values = FALSE,
  callbacks = NULL,
  ties_method = "least_features"
)

Arguments

task

(mlr3::Task)
Task to operate on.

learner

(mlr3::Learner)
Learner to optimize the feature subset for.

resampling

(mlr3::Resampling)
Resampling that is used to evaluated the performance of the feature subsets. Uninstantiated resamplings are instantiated during construction so that all feature subsets are evaluated on the same data splits. Already instantiated resamplings are kept unchanged.

measures

(mlr3::Measure or list of mlr3::Measure)
A single measure creates a FSelectInstanceBatchSingleCrit and multiple measures a FSelectInstanceBatchMultiCrit. If NULL, default measure is used.

terminator

(Terminator)
Stop criterion of the feature selection.

store_benchmark_result

(logical(1))
Store benchmark result in archive?

store_models

(logical(1)). Store models in benchmark result?

check_values

(logical(1))
Check the parameters before the evaluation and the results for validity?

callbacks

(list of CallbackBatchFSelect)
List of callbacks.

ties_method

(character(1))
The method to break ties when selecting sets while optimizing and when selecting the best set. Can be "least_features" or "random". The option "least_features" (default) selects the feature set with the least features. If there are multiple best feature sets with the same number of features, one is selected randomly. The random method returns a random feature set from the best feature sets. Ignored if multiple measures are used.

Resources

There are several sections about feature selection in the mlr3book.

The gallery features a collection of case studies and demos about optimization.

Default Measures

If no measure is passed, the default measure is used. The default measure depends on the task type.

TaskDefault MeasurePackage
"classif""classif.ce"mlr3
"regr""regr.mse"mlr3
"surv""surv.cindex"mlr3proba
"dens""dens.logloss"mlr3proba
"classif_st""classif.ce"mlr3spatial
"regr_st""regr.mse"mlr3spatial
"clust""clust.dunn"mlr3cluster

Examples

# Feature selection on Palmer Penguins data set
# \donttest{

task = tsk("penguins")
learner = lrn("classif.rpart")

# Construct feature selection instance
instance = fsi(
  task = task,
  learner = learner,
  resampling = rsmp("cv", folds = 3),
  measures = msr("classif.ce"),
  terminator = trm("evals", n_evals = 4)
)

# Choose optimization algorithm
fselector = fs("random_search", batch_size = 2)

# Run feature selection
fselector$optimize(instance)
#>    bill_depth bill_length body_mass flipper_length island    sex   year
#>        <lgcl>      <lgcl>    <lgcl>         <lgcl> <lgcl> <lgcl> <lgcl>
#> 1:       TRUE        TRUE      TRUE           TRUE  FALSE   TRUE   TRUE
#>                                                    features n_features
#>                                                      <list>      <int>
#> 1: bill_depth,bill_length,body_mass,flipper_length,sex,year          6
#>    classif.ce
#>         <num>
#> 1: 0.05812357

# Subset task to optimal feature set
task$select(instance$result_feature_set)

# Train the learner with optimal feature set on the full data set
learner$train(task)

# Inspect all evaluated sets
as.data.table(instance$archive)
#>    bill_depth bill_length body_mass flipper_length island    sex   year
#>        <lgcl>      <lgcl>    <lgcl>         <lgcl> <lgcl> <lgcl> <lgcl>
#> 1:       TRUE       FALSE     FALSE          FALSE  FALSE  FALSE  FALSE
#> 2:       TRUE       FALSE     FALSE           TRUE   TRUE   TRUE   TRUE
#> 3:       TRUE       FALSE      TRUE          FALSE  FALSE   TRUE  FALSE
#> 4:       TRUE        TRUE      TRUE           TRUE  FALSE   TRUE   TRUE
#>    classif.ce runtime_learners           timestamp batch_nr warnings errors
#>         <num>            <num>              <POSc>    <int>    <int>  <int>
#> 1: 0.26168319            0.029 2024-05-13 08:21:42        1        0      0
#> 2: 0.15410628            0.026 2024-05-13 08:21:42        1        0      0
#> 3: 0.31093313            0.027 2024-05-13 08:21:42        2        0      0
#> 4: 0.05812357            0.032 2024-05-13 08:21:42        2        0      0
#>                                                    features n_features
#>                                                      <list>     <list>
#> 1:                                               bill_depth          1
#> 2:                bill_depth,flipper_length,island,sex,year          5
#> 3:                                 bill_depth,body_mass,sex          3
#> 4: bill_depth,bill_length,body_mass,flipper_length,sex,year          6
#>     resample_result
#>              <list>
#> 1: <ResampleResult>
#> 2: <ResampleResult>
#> 3: <ResampleResult>
#> 4: <ResampleResult>
# }