importance.randomForest: Extract variable importance measure This is the extractor...

In MVan35/resGF_tryout: Estimating resistance surface

Extract variable importance measure This is the extractor function for variable importance measures as produced by randomForest.

Description

Here are the definitions of the variable importance measures. For each tree, the prediction accuracy on the out-of-bag portion of the data is recorded. Then the same is done after permuting each predictor variable. The difference between the two accuracies are then averaged over all trees, and normalized by the standard error. For regression, the MSE is computed on the out-of-bag data for each tree, and then the same computed after permuting a variable. The differences are averaged and normalized by the standard error. If the standard error is equal to 0 for a variable, the division is not done (but the measure is almost always equal to 0 in that case).

Usage

## S3 method for class 'randomForest'
importance(x, type = NULL, class = NULL, scale = TRUE, ...)

Arguments

x	an object of class randomForest
type	either 1 or 2, specifying the type of importance measure (1=mean decrease in accuracy, 2=mean decrease in node impurity).
class	for classification problem, which class-specific measure to return.

Details

The second measure is the total decrease in node impurities from splitting on the variable, averaged over all trees. For classification, the node impurity is measured by the Gini index. For regression, it is measured by residual sum of squares.

Value

A (named) vector of importance measure, one for each predictor variable.

Examples

set.seed(4543)
data(mtcars)
mtcars.rf <- randomForest(mpg ~ ., data=mtcars, ntree=1000, keep.forest=FALSE, importance=TRUE)
importance(mtcars.rf)
importance(mtcars.rf, type=1)

MVan35/resGF_tryout documentation built on May 10, 2022, 12:24 p.m.