Classification Random Forest SRC Learner

Random forest for classification. Calls randomForestSRC::rfsrc() from randomForestSRC.

Dictionary

This Learner can be instantiated via lrn():

lrn("classif.rfsrc")

Meta Information

• Task type: “classif”

• Predict Types: “response”, “prob”

• Feature Types: “logical”, “integer”, “numeric”, “factor”

• Required Packages: mlr3, mlr3extralearners, randomForestSRC

Parameters

Id	Type	Default	Levels	Range
ntree	integer	500		\([1, \infty)\)
mtry	integer	-		\([1, \infty)\)
mtry.ratio	numeric	-		\([0, 1]\)
nodesize	integer	15		\([1, \infty)\)
nodedepth	integer	-		\([1, \infty)\)
splitrule	character	gini	gini, auc, entropy	-
nsplit	integer	10		\([0, \infty)\)
importance	character	FALSE	FALSE, TRUE, none, permute, random, anti	-
block.size	integer	10		\([1, \infty)\)
bootstrap	character	by.root	by.root, by.node, none, by.user	-
samptype	character	swor	swor, swr	-
samp	untyped	-		-
membership	logical	FALSE	TRUE, FALSE	-
sampsize	untyped	-		-
sampsize.ratio	numeric	-		\([0, 1]\)
na.action	character	na.omit	na.omit, na.impute	-
nimpute	integer	1		\([1, \infty)\)
ntime	integer	-		\([1, \infty)\)
cause	integer	-		\([1, \infty)\)
proximity	character	FALSE	FALSE, TRUE, inbag, oob, all	-
distance	character	FALSE	FALSE, TRUE, inbag, oob, all	-
forest.wt	character	FALSE	FALSE, TRUE, inbag, oob, all	-
xvar.wt	untyped	-		-
split.wt	untyped	-		-
forest	logical	TRUE	TRUE, FALSE	-
var.used	character	FALSE	FALSE, all.trees, by.tree	-
split.depth	character	FALSE	FALSE, all.trees, by.tree	-
seed	integer	-		\((-\infty, -1]\)
do.trace	logical	FALSE	TRUE, FALSE	-
statistics	logical	FALSE	TRUE, FALSE	-
get.tree	untyped	-		-
outcome	character	train	train, test	-
ptn.count	integer	0		\([0, \infty)\)
cores	integer	1		\([1, \infty)\)
save.memory	logical	FALSE	TRUE, FALSE	-
perf.type	character	-	gmean, misclass, brier, none	-
case.depth	logical	FALSE	TRUE, FALSE	-

Custom mlr3 parameters

• mtry: This hyperparameter can alternatively be set via the added hyperparameter mtry.ratio as mtry = max(ceiling(mtry.ratio * n_features), 1). Note that mtry and mtry.ratio are mutually exclusive.

• sampsize: This hyperparameter can alternatively be set via the added hyperparameter sampsize.ratio as sampsize = max(ceiling(sampsize.ratio * n_obs), 1). Note that sampsize and sampsize.ratio are mutually exclusive.

• cores: This value is set as the option rf.cores during training and is set to 1 by default.

References

Breiman, Leo (2001). “Random Forests.” Machine Learning, 45(1), 5–32. ISSN 1573-0565, doi:10.1023/A:1010933404324 .

See also

• Dictionary of Learners: mlr3::mlr_learners.

• as.data.table(mlr_learners) for a table of available Learners in the running session (depending on the loaded packages).

• Chapter in the mlr3book: https://mlr3book.mlr-org.com/basics.html#learners

• mlr3learners for a selection of recommended learners.

• mlr3cluster for unsupervised clustering learners.

• mlr3pipelines to combine learners with pre- and postprocessing steps.

• mlr3tuning for tuning of hyperparameters, mlr3tuningspaces for established default tuning spaces.

Author

RaphaelS1

Super classes

mlr3::Learner -> mlr3::LearnerClassif -> LearnerClassifRandomForestSRC

Methods

Public methods

• LearnerClassifRandomForestSRC$new()

• LearnerClassifRandomForestSRC$importance()

• LearnerClassifRandomForestSRC$selected_features()

• LearnerClassifRandomForestSRC$oob_error()

• LearnerClassifRandomForestSRC$clone()

Inherited methods

• mlr3::Learner$base_learner()
• mlr3::Learner$encapsulate()
• mlr3::Learner$format()
• mlr3::Learner$help()
• mlr3::Learner$predict()
• mlr3::Learner$predict_newdata()
• mlr3::Learner$print()
• mlr3::Learner$reset()
• mlr3::Learner$train()

---

Method new()

Creates a new instance of this R6 class.

Usage

LearnerClassifRandomForestSRC$new()

---

Method importance()

The importance scores are extracted from the model slot importance, returned for 'all'.

Usage

LearnerClassifRandomForestSRC$importance()

Returns

Named numeric().

---

Method selected_features()

Selected features are extracted from the model slot var.used.

Usage

LearnerClassifRandomForestSRC$selected_features()

Returns

character().

---

Method oob_error()

OOB error extracted from the model slot err.rate.

Usage

LearnerClassifRandomForestSRC$oob_error()

Returns

numeric().

---

Method clone()

The objects of this class are cloneable with this method.

Usage

LearnerClassifRandomForestSRC$clone(deep = FALSE)

Arguments

deep

Whether to make a deep clone.

Examples

# Define the Learner
learner = mlr3::lrn("classif.rfsrc", importance = "TRUE")
print(learner)
#> <LearnerClassifRandomForestSRC:classif.rfsrc>: Random Forest
#> * Model: -
#> * Parameters: importance=TRUE
#> * Packages: mlr3, mlr3extralearners, randomForestSRC
#> * Predict Types:  [response], prob
#> * Feature Types: logical, integer, numeric, factor
#> * Properties: importance, missings, multiclass, oob_error, twoclass,
#>   weights

# Define a Task
task = mlr3::tsk("sonar")
# Create train and test set
ids = mlr3::partition(task)

# Train the learner on the training ids
learner$train(task, row_ids = ids$train)

print(learner$model)
#>                          Sample size: 139
#>            Frequency of class labels: 78, 61
#>                      Number of trees: 500
#>            Forest terminal node size: 1
#>        Average no. of terminal nodes: 16.938
#> No. of variables tried at each split: 8
#>               Total no. of variables: 60
#>        Resampling used to grow trees: swor
#>     Resample size used to grow trees: 88
#>                             Analysis: RF-C
#>                               Family: class
#>                       Splitting rule: gini *random*
#>        Number of random split points: 10
#>                     Imbalanced ratio: 1.2787
#>                    (OOB) Brier score: 0.13364492
#>         (OOB) Normalized Brier score: 0.53457968
#>                            (OOB) AUC: 0.92076503
#>                       (OOB) Log-loss: 0.42073707
#>                         (OOB) PR-AUC: 0.89938638
#>                         (OOB) G-mean: 0.74304962
#>    (OOB) Requested performance error: 0.22302158, 0.08974359, 0.39344262
#> 
#> Confusion matrix:
#> 
#>           predicted
#>   observed  M  R class.error
#>          M 71  7      0.0897
#>          R 24 37      0.3934
#> 
#>       (OOB) Misclassification rate: 0.2230216
print(learner$importance())
#>           V48           V11            V9           V10           V47 
#>  0.0530502491  0.0495091489  0.0387281895  0.0362589124  0.0349376353 
#>           V49           V12           V16           V36           V17 
#>  0.0323350261  0.0259084639  0.0235855668  0.0235839795  0.0202936681 
#>           V18           V37           V51           V45           V34 
#>  0.0192723302  0.0168973068  0.0151605251  0.0147004791  0.0126753389 
#>            V8           V35           V28           V43           V14 
#>  0.0120572591  0.0117979817  0.0116667881  0.0116215283  0.0104822426 
#>           V21            V5           V22           V19            V6 
#>  0.0103522199  0.0091767304  0.0091678281  0.0090369355  0.0088839185 
#>           V23           V15           V52           V39            V4 
#>  0.0085607051  0.0084710734  0.0084645232  0.0084255466  0.0082507600 
#>           V46           V26           V40           V20           V44 
#>  0.0081641352  0.0081598435  0.0078731914  0.0074020169  0.0068119094 
#>           V32           V59           V13            V3           V30 
#>  0.0056810758  0.0053635414  0.0051153219  0.0051013505  0.0048137072 
#>           V27           V42           V33           V29           V50 
#>  0.0047990510  0.0045346361  0.0043595052  0.0043541090  0.0034880424 
#>           V31           V25           V58            V7           V57 
#>  0.0034742882  0.0033651633  0.0032215899  0.0030710304  0.0029345513 
#>           V38           V60           V54            V1           V55 
#>  0.0025948453  0.0024937161  0.0024648405  0.0023272254  0.0020290762 
#>           V41           V53           V24           V56            V2 
#>  0.0007342663  0.0004443511  0.0002686788 -0.0001323881 -0.0008654721 

# Make predictions for the test rows
predictions = learner$predict(task, row_ids = ids$test)

# Score the predictions
predictions$score()
#> classif.ce 
#>  0.2318841