Шаг 1: Установка и загрузка пакетов
# Установка пакетов
install.packages("caret", repos = "https://cloud.r-project.org/")
## пакет 'caret' успешно распакован, MD5-суммы проверены
##
## Скачанные бинарные пакеты находятся в
## C:\Users\user\AppData\Local\Temp\RtmpcDbY5e\downloaded_packages
install.packages("FSelector", repos = "https://cloud.r-project.org/")
## пакет 'FSelector' успешно распакован, MD5-суммы проверены
##
## Скачанные бинарные пакеты находятся в
## C:\Users\user\AppData\Local\Temp\RtmpcDbY5e\downloaded_packages
install.packages("arules", repos = "https://cloud.r-project.org/")
install.packages("Boruta", repos = "https://cloud.r-project.org/")
## пакет 'Boruta' успешно распакован, MD5-суммы проверены
##
## Скачанные бинарные пакеты находятся в
## C:\Users\user\AppData\Local\Temp\RtmpcDbY5e\downloaded_packages
install.packages("mlbench", repos = "https://cloud.r-project.org/")
## пакет 'mlbench' успешно распакован, MD5-суммы проверены
##
## Скачанные бинарные пакеты находятся в
## C:\Users\user\AppData\Local\Temp\RtmpcDbY5e\downloaded_packages
# Загрузка библиотек
library(caret)
library(FSelector)
library(arules)
library(Boruta)
library(mlbench)
names(getModelInfo())
## [1] "ada" "AdaBag" "AdaBoost.M1"
## [4] "adaboost" "amdai" "ANFIS"
## [7] "avNNet" "awnb" "awtan"
## [10] "bag" "bagEarth" "bagEarthGCV"
## [13] "bagFDA" "bagFDAGCV" "bam"
## [16] "bartMachine" "bayesglm" "binda"
## [19] "blackboost" "blasso" "blassoAveraged"
## [22] "bridge" "brnn" "BstLm"
## [25] "bstSm" "bstTree" "C5.0"
## [28] "C5.0Cost" "C5.0Rules" "C5.0Tree"
## [31] "cforest" "chaid" "CSimca"
## [34] "ctree" "ctree2" "cubist"
## [37] "dda" "deepboost" "DENFIS"
## [40] "dnn" "dwdLinear" "dwdPoly"
## [43] "dwdRadial" "earth" "elm"
## [46] "enet" "evtree" "extraTrees"
## [49] "fda" "FH.GBML" "FIR.DM"
## [52] "foba" "FRBCS.CHI" "FRBCS.W"
## [55] "FS.HGD" "gam" "gamboost"
## [58] "gamLoess" "gamSpline" "gaussprLinear"
## [61] "gaussprPoly" "gaussprRadial" "gbm_h2o"
## [64] "gbm" "gcvEarth" "GFS.FR.MOGUL"
## [67] "GFS.LT.RS" "GFS.THRIFT" "glm.nb"
## [70] "glm" "glmboost" "glmnet_h2o"
## [73] "glmnet" "glmStepAIC" "gpls"
## [76] "hda" "hdda" "hdrda"
## [79] "HYFIS" "icr" "J48"
## [82] "JRip" "kernelpls" "kknn"
## [85] "knn" "krlsPoly" "krlsRadial"
## [88] "lars" "lars2" "lasso"
## [91] "lda" "lda2" "leapBackward"
## [94] "leapForward" "leapSeq" "Linda"
## [97] "lm" "lmStepAIC" "LMT"
## [100] "loclda" "logicBag" "LogitBoost"
## [103] "logreg" "lssvmLinear" "lssvmPoly"
## [106] "lssvmRadial" "lvq" "M5"
## [109] "M5Rules" "manb" "mda"
## [112] "Mlda" "mlp" "mlpKerasDecay"
## [115] "mlpKerasDecayCost" "mlpKerasDropout" "mlpKerasDropoutCost"
## [118] "mlpML" "mlpSGD" "mlpWeightDecay"
## [121] "mlpWeightDecayML" "monmlp" "msaenet"
## [124] "multinom" "mxnet" "mxnetAdam"
## [127] "naive_bayes" "nb" "nbDiscrete"
## [130] "nbSearch" "neuralnet" "nnet"
## [133] "nnls" "nodeHarvest" "null"
## [136] "OneR" "ordinalNet" "ordinalRF"
## [139] "ORFlog" "ORFpls" "ORFridge"
## [142] "ORFsvm" "ownn" "pam"
## [145] "parRF" "PART" "partDSA"
## [148] "pcaNNet" "pcr" "pda"
## [151] "pda2" "penalized" "PenalizedLDA"
## [154] "plr" "pls" "plsRglm"
## [157] "polr" "ppr" "pre"
## [160] "PRIM" "protoclass" "qda"
## [163] "QdaCov" "qrf" "qrnn"
## [166] "randomGLM" "ranger" "rbf"
## [169] "rbfDDA" "Rborist" "rda"
## [172] "regLogistic" "relaxo" "rf"
## [175] "rFerns" "RFlda" "rfRules"
## [178] "ridge" "rlda" "rlm"
## [181] "rmda" "rocc" "rotationForest"
## [184] "rotationForestCp" "rpart" "rpart1SE"
## [187] "rpart2" "rpartCost" "rpartScore"
## [190] "rqlasso" "rqnc" "RRF"
## [193] "RRFglobal" "rrlda" "RSimca"
## [196] "rvmLinear" "rvmPoly" "rvmRadial"
## [199] "SBC" "sda" "sdwd"
## [202] "simpls" "SLAVE" "slda"
## [205] "smda" "snn" "sparseLDA"
## [208] "spikeslab" "spls" "stepLDA"
## [211] "stepQDA" "superpc" "svmBoundrangeString"
## [214] "svmExpoString" "svmLinear" "svmLinear2"
## [217] "svmLinear3" "svmLinearWeights" "svmLinearWeights2"
## [220] "svmPoly" "svmRadial" "svmRadialCost"
## [223] "svmRadialSigma" "svmRadialWeights" "svmSpectrumString"
## [226] "tan" "tanSearch" "treebag"
## [229] "vbmpRadial" "vglmAdjCat" "vglmContRatio"
## [232] "vglmCumulative" "widekernelpls" "WM"
## [235] "wsrf" "xgbDART" "xgbLinear"
## [238] "xgbTree" "xyf"
## Шаг 2: Графический разведочный анализ с caret
set.seed(123)
x <- matrix(rnorm(50 * 5), ncol = 5)
colnames(x) <- paste0("X", 1:5)
y <- factor(rep(c("A", "B"), each = 25))
df <- data.frame(x, y = y)
# Сохранение графиков в jpg-файлы
jpeg("pairs_plot.jpg")
featurePlot(x = df[, 1:5], y = df$y, plot = "pairs")
dev.off()
## png
## 2
jpeg("density_plot.jpg")
featurePlot(x = df[, 1:5], y = df$y, plot = "density", auto.key = list(columns = 2))
dev.off()
## png
## 2
jpeg("box_plot.jpg")
featurePlot(x = df[, 1:5], y = df$y, plot = "box", auto.key = list(columns = 2))
dev.off()
## png
## 2
# Отображение графиков в отчёте
featurePlot(x = df[, 1:5], y = df$y, plot = "pairs")
featurePlot(x = df[, 1:5], y = df$y, plot = "density", auto.key = list(columns = 2))
featurePlot(x = df[, 1:5], y = df$y, plot = "box", auto.key = list(columns = 2))
## Шаг 3: Выбор признаков (FSelector)
library(FSelector)
data(iris)
ig <- information.gain(Species ~ ., iris)
gr <- gain.ratio(Species ~ ., iris)
su <- symmetrical.uncertainty(Species ~ ., iris)
# Гистограмма Information Gain
barplot(ig$attr_importance,
names.arg = rownames(ig),
las = 2,
col = "skyblue",
main = "Information Gain",
ylab = "Importance")
##Шаг 4: Дискретизация (arules)
iris$interval <- discretize(iris$Petal.Length, method = "interval", categories = 3)
## Warning in discretize(iris$Petal.Length, method = "interval", categories = 3):
## Parameter categories is deprecated. Use breaks instead! Also, the default
## method is now frequency!
iris$frequency <- discretize(iris$Petal.Length, method = "frequency", categories = 3)
## Warning in discretize(iris$Petal.Length, method = "frequency", categories = 3):
## Parameter categories is deprecated. Use breaks instead! Also, the default
## method is now frequency!
iris$cluster <- discretize(iris$Petal.Length, method = "cluster", categories = 3)
## Warning in discretize(iris$Petal.Length, method = "cluster", categories = 3):
## Parameter categories is deprecated. Use breaks instead! Also, the default
## method is now frequency!
iris$fixed <- discretize(iris$Petal.Length, method = "fixed", breaks = c(0, 2, 4, 7))
summary(iris[, c("interval", "frequency", "cluster", "fixed")])
## interval frequency cluster fixed
## [1,2.97) :50 [1,2.63) :50 [1,2.85) :50 [0,2):50
## [2.97,4.93):54 [2.63,4.9):49 [2.85,4.89):49 [2,4):11
## [4.93,6.9] :46 [4.9,6.9] :51 [4.89,6.9] :51 [4,7]:89
## Шаг 5: Отбор признаков (Boruta)
data("Ozone")
ozone_data <- na.omit(Ozone)
set.seed(123)
boruta_result <- Boruta(V4 ~ ., data = ozone_data, doTrace = 0)
# Построение boxplot по важности признаков
plot(boruta_result, las = 2, cex.axis = 0.7)
