I trained a random forest using caret
+ ranger
.
fit <- train(
y ~ x1 + x2
,data = total_set
,method = "ranger"
,trControl = trainControl(method="cv", number = 5, allowParallel = TRUE, verbose = TRUE)
,tuneGrid = expand.grid(mtry = c(4,5,6))
,importance = 'impurity'
)
Now I'd like to see the importance of variables. However, none of these work :
> importance(fit)
Error in UseMethod("importance") : no applicable method for 'importance' applied to an object of class "c('train', 'train.formula')"
> fit$variable.importance
NULL
> fit$importance
NULL
> fit
Random Forest
217380 samples
32 predictors
No pre-processing
Resampling: Cross-Validated (5 fold)
Summary of sample sizes: 173904, 173904, 173904, 173904, 173904
Resampling results across tuning parameters:
mtry RMSE Rsquared
4 0.03640464 0.5378731
5 0.03645528 0.5366478
6 0.03651451 0.5352838
RMSE was used to select the optimal model using the smallest value.
The final value used for the model was mtry = 4.
Any idea if & how I can get it ?
Thanks.
varImp(fit)
will get it for you.
To figure that out, I looked at names(fit)
, which led me to names(fit$modelInfo)
- then you'll see varImp
as one of the options.
For 'ranger' package you could call an importance with
fit$variable.importance
As a side note, you could see the all available outputs for the model using str()
str(fit)
according to @fmalaussena
set.seed(123)
ctrl <- trainControl(method = 'cv',
number = 10,
classProbs = TRUE,
savePredictions = TRUE,
verboseIter = TRUE)
rfFit <- train(Species ~ .,
data = iris,
method = "ranger",
importance = "permutation", #***
trControl = ctrl,
verbose = T)
You can pass either "permutation"
or "impurity"
to argument importance
.
The description for both value can be found here: https://alexisperrier.com/datascience/2015/08/27/feature-importance-random-forests-gini-accuracy.html
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