caret: Classification and Regression Training

Misc functions for training and plotting classification and regression models.

AuthorMax Kuhn. Contributions from Jed Wing, Steve Weston, Andre Williams, Chris Keefer, Allan Engelhardt, Tony Cooper, Zachary Mayer, Brenton Kenkel, the R Core Team, Michael Benesty, Reynald Lescarbeau, Andrew Ziem, Luca Scrucca, Yuan Tang, Can Candan, and Tyler Hunt.
Date of publication2016-11-10 08:18:44
MaintainerMax Kuhn <mxkuhn@gmail.com>
LicenseGPL (>= 2)
Version6.0-73
https://github.com/topepo/caret/

View on CRAN

Man pages

as.matrix.confusionMatrix: Confusion matrix as a table

avNNet: Neural Networks Using Model Averaging

bag: A General Framework For Bagging

bagEarth: Bagged Earth

bagFDA: Bagged FDA

BloodBrain: Blood Brain Barrier Data

BoxCoxTrans: Box-Cox and Exponential Transformations

calibration: Probability Calibration Plot

caretFuncs: Backwards Feature Selection Helper Functions

caret-internal: Internal Functions

caretSBF: Selection By Filtering (SBF) Helper Functions

cars: Kelly Blue Book resale data for 2005 model year GM cars

classDist: Compute and predict the distances to class centroids

confusionMatrix: Create a confusion matrix

confusionMatrix.train: Estimate a Resampled Confusion Matrix

cox2: COX-2 Activity Data

createDataPartition: Data Splitting functions

densityplot.rfe: Lattice functions for plotting resampling results of...

dhfr: Dihydrofolate Reductase Inhibitors Data

diff.resamples: Inferential Assessments About Model Performance

dotPlot: Create a dotplot of variable importance values

dotplot.diff.resamples: Lattice Functions for Visualizing Resampling Differences

downSample: Down- and Up-Sampling Imbalanced Data

dummyVars: Create A Full Set of Dummy Variables

featurePlot: Wrapper for Lattice Plotting of Predictor Variables

filterVarImp: Calculation of filter-based variable importance

findCorrelation: Determine highly correlated variables

findLinearCombos: Determine linear combinations in a matrix

format.bagEarth: Format 'bagEarth' objects

gafs.default: Genetic algorithm feature selection

gafs_initial: Ancillary genetic algorithm functions

GermanCredit: German Credit Data

getSamplingInfo: Get sampling info from a train model

histogram.train: Lattice functions for plotting resampling results

icr.formula: Independent Component Regression

index2vec: Convert indicies to a binary vector

knn3: k-Nearest Neighbour Classification

knnreg: k-Nearest Neighbour Regression

learing_curve_dat: Create Data to Plot a Learning Curve

lift: Lift Plot

maxDissim: Maximum Dissimilarity Sampling

mdrr: Multidrug Resistance Reversal (MDRR) Agent Data

modelLookup: Tools for Models Available in 'train'

models: A List of Available Models in train

nearZeroVar: Identification of near zero variance predictors

nullModel: Fit a simple, non-informative model

oil: Fatty acid composition of commercial oils

oneSE: Selecting tuning Parameters

panel.lift2: Lattice Panel Functions for Lift Plots

panel.needle: Needle Plot Lattice Panel

pcaNNet: Neural Networks with a Principal Component Step

plotClassProbs: Plot Predicted Probabilities in Classification Models

plot.gafs: Plot Method for the gafs and safs Classes

plotObsVsPred: Plot Observed versus Predicted Results in Regression and...

plot.rfe: Plot RFE Performance Profiles

plot.train: Plot Method for the train Class

plot.varImp.train: Plotting variable importance measures

plsda: Partial Least Squares and Sparse Partial Least Squares...

postResample: Calculates performance across resamples

pottery: Pottery from Pre-Classical Sites in Italy

prcomp.resamples: Principal Components Analysis of Resampling Results

predict.bagEarth: Predicted values based on bagged Earth and FDA models

predict.gafs: Predict new samples

predict.knn3: Predictions from k-Nearest Neighbors

predict.knnreg: Predictions from k-Nearest Neighbors Regression Model

predictors: List predictors used in the model

predict.train: Extract predictions and class probabilities from train...

preProcess: Pre-Processing of Predictors

print.confusionMatrix: Print method for confusionMatrix

print.train: Print Method for the train Class

recall: Calculate recall, precision and F values

resampleHist: Plot the resampling distribution of the model statistics

resamples: Collation and Visualization of Resampling Results

resampleSummary: Summary of resampled performance estimates

rfe: Backwards Feature Selection

rfeControl: Controlling the Feature Selection Algorithms

Sacramento: Sacramento CA Home Prices

safs: Simulated annealing feature selection

safsControl: Control parameters for GA and SA feature selection

safs_initial: Ancillary simulated annealing functions

sbf: Selection By Filtering (SBF)

sbfControl: Control Object for Selection By Filtering (SBF)

scat: Morphometric Data on Scat

segmentationData: Cell Body Segmentation

sensitivity: Calculate sensitivity, specificity and predictive values

spatialSign: Compute the multivariate spatial sign

summary.bagEarth: Summarize a bagged earth or FDA fit

tecator: Fat, Water and Protein Content of Meat Samples

train: Fit Predictive Models over Different Tuning Parameters

trainControl: Control parameters for train

twoClassSim: Simulation Functions

update.safs: Update or Re-fit a SA or GA Model

update.train: Update or Re-fit a Model

varImp: Calculation of variable importance for regression and...

varImp.gafs: Variable importances for GAs and SAs

var_seq: Sequences of Variables for Tuning

xyplot.resamples: Lattice Functions for Visualizing Resampling Results

Files in this package

caret
caret/inst
caret/inst/NEWS.Rd
caret/inst/models
caret/inst/models/sampling.RData
caret/inst/models/models.RData
caret/inst/doc
caret/inst/doc/caret.Rnw
caret/inst/doc/caret.pdf
caret/inst/doc/caret.R
caret/tests
caret/tests/testthat.R
caret/tests/testthat
caret/tests/testthat/preProcess_methods.R
caret/tests/testthat/test_models_bagEarth.R
caret/tests/testthat/test_nearZeroVar.R
caret/tests/testthat/trim_glm.R
caret/tests/testthat/trim_train.R
caret/tests/testthat/test_confusionMatrix.R
caret/tests/testthat/test_sampling_options.R
caret/tests/testthat/preProcess.R
caret/tests/testthat/test_glmnet_varImp.R
caret/tests/testthat/test_minimal.R
caret/tests/testthat/trim_rpart.R
caret/tests/testthat/test_mnLogLoss.R
caret/tests/testthat/trim_C5.R
caret/tests/testthat/trim_bayesglm.R
caret/tests/testthat/test_bad_class_options.R
caret/tests/testthat/test_twoClassSummary.R
caret/tests/testthat/trim.R
caret/tests/testthat/test_BoxCox.R
caret/tests/testthat/trim_glmnet.R
caret/tests/testthat/trim_treebag.R
caret/tests/testthat/test_Dummies.R
caret/src
caret/src/caret.c
caret/NAMESPACE
caret/data
caret/data/segmentationData.RData
caret/data/tecator.RData
caret/data/cars.RData
caret/data/cox2.RData
caret/data/BloodBrain.RData
caret/data/scat.RData
caret/data/dhfr.RData
caret/data/pottery.RData
caret/data/mdrr.RData
caret/data/datalist
caret/data/Sacramento.RData
caret/data/GermanCredit.RData
caret/data/oil.RData
caret/R
caret/R/lattice.train.R caret/R/varImp.R caret/R/dotplot.varImp.train.R caret/R/plot.varImp.train.R caret/R/print.varImp.train.R caret/R/resampleWrapper.R caret/R/predictors.R caret/R/dummyVar.R caret/R/findLinearCombos.R caret/R/avNNet.R caret/R/aaa.R caret/R/splsda.R caret/R/specificity.R caret/R/bag.R caret/R/knnreg.R caret/R/getTrainPerf.R caret/R/resampleHist.R caret/R/learning_curve.R caret/R/featurePlot.R caret/R/bagFDA.R caret/R/workflows.R caret/R/spatialSign.R caret/R/plsda.R caret/R/confusionMatrix.R caret/R/reg_sims.R caret/R/updates.R caret/R/common_code.R caret/R/modelLookup.R caret/R/ggplot.R caret/R/plot.train.R caret/R/prec_rec.R caret/R/print.mars.R caret/R/caret-package.R caret/R/varImp.train.R caret/R/createDataPartition.R caret/R/extractPrediction.R caret/R/preProcess.R caret/R/extractProb.R caret/R/pcaNNet.R caret/R/classDist.R caret/R/nearZeroVar.R caret/R/basic2x2Stats.R caret/R/predictionFunction.R caret/R/findCorrelation.R caret/R/selection.R caret/R/lift.R caret/R/sampling.R caret/R/plotObsVsPred.R caret/R/bagEarth.R caret/R/classLevels.R caret/R/negPredValue.R caret/R/createResample.R caret/R/panel.needle.R caret/R/print.train.R caret/R/resamples.R caret/R/format.bagEarth.R caret/R/rfe.R caret/R/plotClassProbs.R caret/R/trainControl.R caret/R/diag.R caret/R/calibration.R caret/R/trim.R caret/R/suggestions.R caret/R/filterVarImp.R caret/R/posPredValue.R caret/R/sensitivity.R caret/R/expoTrans.R caret/R/createModel.R caret/R/BoxCoxTrans.R caret/R/gafs.R caret/R/resampleSummary.R caret/R/misc.R caret/R/selectByFilter.R caret/R/additive.R caret/R/postResample.R caret/R/adaptive.R caret/R/maxDissim.R caret/R/heldout.R caret/R/probFunction.R caret/R/twoClassSim.R caret/R/safs.R caret/R/knn3.R caret/R/sortImp.R caret/R/icr.R caret/R/caretTheme.R caret/R/train.default.R caret/R/predict.PLS.R caret/R/predict.train.R
caret/vignettes
caret/vignettes/caret.Rnw
caret/vignettes/train_algo.pdf
caret/vignettes/algorithm.tex
caret/MD5
caret/build
caret/build/vignette.rds
caret/DESCRIPTION
caret/man
caret/man/prcomp.resamples.Rd caret/man/avNNet.Rd caret/man/bagEarth.Rd caret/man/plot.rfe.Rd caret/man/gafs_initial.Rd caret/man/models.Rd caret/man/rfe.Rd caret/man/var_seq.Rd caret/man/update.train.Rd caret/man/sbfControl.Rd caret/man/caret-internal.Rd caret/man/sensitivity.Rd caret/man/plsda.Rd caret/man/xyplot.resamples.Rd caret/man/spatialSign.Rd caret/man/sbf.Rd caret/man/BoxCoxTrans.Rd caret/man/preProcess.Rd caret/man/tecator.Rd caret/man/findLinearCombos.Rd caret/man/diff.resamples.Rd caret/man/modelLookup.Rd caret/man/dotPlot.Rd caret/man/as.matrix.confusionMatrix.Rd caret/man/knn3.Rd caret/man/plotObsVsPred.Rd caret/man/predict.bagEarth.Rd caret/man/plot.train.Rd caret/man/predict.knn3.Rd caret/man/calibration.Rd caret/man/nullModel.Rd caret/man/densityplot.rfe.Rd caret/man/twoClassSim.Rd caret/man/predict.gafs.Rd caret/man/predict.knnreg.Rd caret/man/pcaNNet.Rd caret/man/maxDissim.Rd caret/man/panel.lift2.Rd caret/man/oneSE.Rd caret/man/oil.Rd caret/man/panel.needle.Rd caret/man/createDataPartition.Rd caret/man/resampleSummary.Rd caret/man/bag.Rd caret/man/train.Rd caret/man/learing_curve_dat.Rd caret/man/safs_initial.Rd caret/man/postResample.Rd caret/man/dotplot.diff.resamples.Rd caret/man/knnreg.Rd caret/man/pottery.Rd caret/man/Sacramento.Rd caret/man/featurePlot.Rd caret/man/GermanCredit.Rd caret/man/safs.Rd caret/man/plotClassProbs.Rd caret/man/lift.Rd caret/man/icr.formula.Rd caret/man/confusionMatrix.Rd caret/man/predictors.Rd caret/man/scat.Rd caret/man/predict.train.Rd caret/man/confusionMatrix.train.Rd caret/man/bagFDA.Rd caret/man/format.bagEarth.Rd caret/man/trainControl.Rd caret/man/caretFuncs.Rd caret/man/findCorrelation.Rd caret/man/recall.Rd caret/man/downSample.Rd caret/man/update.safs.Rd caret/man/resampleHist.Rd caret/man/BloodBrain.Rd caret/man/print.confusionMatrix.Rd caret/man/cars.Rd caret/man/caretSBF.Rd caret/man/varImp.gafs.Rd caret/man/mdrr.Rd caret/man/safsControl.Rd caret/man/segmentationData.Rd caret/man/rfeControl.Rd caret/man/dummyVars.Rd caret/man/summary.bagEarth.Rd caret/man/getSamplingInfo.Rd caret/man/varImp.Rd caret/man/dhfr.Rd caret/man/plot.varImp.train.Rd caret/man/index2vec.Rd caret/man/cox2.Rd caret/man/plot.gafs.Rd caret/man/resamples.Rd caret/man/gafs.default.Rd caret/man/print.train.Rd caret/man/filterVarImp.Rd caret/man/classDist.Rd caret/man/nearZeroVar.Rd caret/man/histogram.train.Rd
caret/.Rinstignore

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