diff --git a/R/mlClassificationBoosting.R b/R/mlClassificationBoosting.R index 8edcfa69..bfd8c984 100644 --- a/R/mlClassificationBoosting.R +++ b/R/mlClassificationBoosting.R @@ -147,27 +147,32 @@ mlClassificationBoosting <- function(jaspResults, dataset, options, ...) { dataProbs <- gbm::predict.gbm(fit, newdata = dataset, n.trees = noOfTrees, type = "response") dataPredictions <- colnames(dataProbs)[apply(dataProbs, 1, which.max)] testPredictions <- dataPredictions[-trainingIndex] + targetLevels <- levels(dataset[, options[["target"]]]) + testPredictions <- factor(testPredictions, levels = targetLevels) + testReal <- factor(testSet[, options[["target"]]], levels = targetLevels) # Create results object result <- list() result[["model"]] <- fit result[["formula"]] <- formula result[["noOfFolds"]] <- noOfFolds result[["noOfTrees"]] <- noOfTrees - result[["confTable"]] <- table("Pred" = testPredictions, "Real" = testSet[, options[["target"]]]) + result[["confTable"]] <- table("Pred" = testPredictions, "Real" = testReal) result[["testAcc"]] <- sum(diag(prop.table(result[["confTable"]]))) result[["relInf"]] <- summary(fit, plot = FALSE) result[["auc"]] <- .classificationCalcAUC(testSet, trainingSet, options, "boostingClassification", noOfFolds = noOfFolds, noOfTrees = noOfTrees) result[["ntrain"]] <- nrow(trainingSet) result[["ntest"]] <- nrow(testSet) result[["testPred"]] <- testPredictions - result[["testReal"]] <- testSet[, options[["target"]]] + result[["testReal"]] <- testReal result[["train"]] <- trainingSet result[["test"]] <- testSet result[["method"]] <- if (options[["modelValid"]] == "validationManual") "OOB" else "" result[["testIndicatorColumn"]] <- testIndicatorColumn result[["classes"]] <- dataPredictions if (options[["modelOptimization"]] != "manual") { - result[["validationConfTable"]] <- table("Pred" = validationPredictions, "Real" = validationSet[, options[["target"]]]) + validationPredictions <- factor(validationPredictions, levels = targetLevels) + validationReal <- factor(validationSet[, options[["target"]]], levels = targetLevels) + result[["validationConfTable"]] <- table("Pred" = validationPredictions, "Real" = validationReal) result[["validAcc"]] <- sum(diag(prop.table(result[["validationConfTable"]]))) result[["nvalid"]] <- nrow(validationSet) result[["valid"]] <- validationSet diff --git a/tests/testthat/_snaps/mlclassificationboosting/data-split.new.svg b/tests/testthat/_snaps/mlclassificationboosting/data-split.new.svg new file mode 100644 index 00000000..689c5b50 --- /dev/null +++ b/tests/testthat/_snaps/mlclassificationboosting/data-split.new.svg @@ -0,0 +1,44 @@ + + + + + + + + + + + + + + + + + + + + + + + + +Train: 114 +Validation: 29 +Test: 35 +Total: 178 + + + + + +data-split + + diff --git a/tests/testthat/_snaps/mlclassificationboosting/relative-influence-plot.new.svg b/tests/testthat/_snaps/mlclassificationboosting/relative-influence-plot.new.svg new file mode 100644 index 00000000..1293ceb8 --- /dev/null +++ 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+relative-influence-plot + + diff --git a/tests/testthat/_snaps/mlregressiondecisiontree/data-split.new.svg b/tests/testthat/_snaps/mlregressiondecisiontree/data-split.new.svg new file mode 100644 index 00000000..b254084a --- /dev/null +++ b/tests/testthat/_snaps/mlregressiondecisiontree/data-split.new.svg @@ -0,0 +1,44 @@ + + + + + + + + + + + + + + + + + + + + + + + + +Train: 96 +Validation: 24 +Test: 30 +Total: 150 + + + + + +data-split + + diff --git a/tests/testthat/_snaps/mlregressiondecisiontree/decision-tree-plot.new.svg b/tests/testthat/_snaps/mlregressiondecisiontree/decision-tree-plot.new.svg new file mode 100644 index 00000000..ca57122f --- /dev/null +++ b/tests/testthat/_snaps/mlregressiondecisiontree/decision-tree-plot.new.svg @@ -0,0 +1,162 @@ + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +< + 0.449 + +< + -0.203 + +< + 0.442 + +≥ + 0.442 + +≥ + -0.203 + +< + -0.705 + +≥ + -0.705 + +≥ + 0.449 + +< + 1.3 + +< + 1.12 + +≥ + 0.46 + +< + 0.46 + +≥ + 1.12 + +≥ + 1.3 + +Petal.Length +n = 96 + +Petal.Length +n = 54 + +Sepal.Width +n = 33 + +4.73 +n = 17 + +5.19 +n = 16 + +Sepal.Width +n = 21 + +5.57 +n = 12 + +5.92 +n = 9 + +Petal.Length +n = 42 + +Petal.Width +n = 34 + +Petal.Width +n = 23 + +6.19 +n = 16 + +6.66 +n = 7 + +6.60 +n = 11 + +7.58 +n = 8 + +4.73 +n = 17 + +5.19 +n = 16 + +5.57 +n = 12 + +5.92 +n = 9 + +6.19 +n = 16 + +6.66 +n = 7 + +6.60 +n = 11 + +7.58 +n = 8 + + + + + +decision-tree-plot + + diff --git a/tests/testthat/_snaps/mlregressionknn/data-split.new.svg b/tests/testthat/_snaps/mlregressionknn/data-split.new.svg new file mode 100644 index 00000000..689c5b50 --- /dev/null +++ b/tests/testthat/_snaps/mlregressionknn/data-split.new.svg @@ -0,0 +1,44 @@ + + + + + + + + + + + + + + + + + + + + + + + + +Train: 114 +Validation: 29 +Test: 35 +Total: 178 + + + + + +data-split + + diff --git a/tests/testthat/_snaps/mlregressionlinear/data-split.new.svg b/tests/testthat/_snaps/mlregressionlinear/data-split.new.svg new file 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