r-caret

I'm training a model in R with the caret package: ctrl <- trainControl(method = "repeatedcv", repeats = 3, summaryFunction = twoClassSummary) logitBoostFit <- train(LoanStatus~., credit, method = "LogitBoost", family=binomial, preProcess=c("center", "scale", "pca"), trControl = ctrl) I'm getting the following warnings: Warning message: In train.default(x, y, weights = w, ...): The metric "Accuracy" was not in the result set. ROC will be used instead.Warning message: In nominalTrainWorkflow(x = x, y = y, wts = weights, info = trainInfo, : There were missing values in resampled performance

I'm running a straightforward linear regression model fit on the following dataframe: > str(model_data_rev) 'data.frame': 128857 obs. of 12 variables: $ ENTRY_4 : num 186 218 208 235 256 447 471 191 207 250 ... $ ENTRY_8 : num 724 769 791 777 707 237 236 726 773 773 ... $ ENTRY_12: num 2853 2989 3174 3027 3028 ... $ ENTRY_16: num 2858 3028 3075 2992 3419 ... $ ENTRY_20: num 7260 7188 7587 7560 7165 ... $ EXIT_4 : num 70 82 105 114 118 204 202 99 73 95 ... $ EXIT_8 : num 1501 1631 1594 1576 1536 ... $ EXIT_12 : num 3862 3923 4158 3970 3895 ... $ EXIT_16 : num 1559 1539 1737 1681 1795 ... $ EXIT

I used caret to train an rpart model below. trainIndex <- createDataPartition(d$Happiness, p=.8, list=FALSE) dtrain <- d[trainIndex, ] dtest <- d[-trainIndex, ] fitControl <- trainControl(## 10-fold CV method = "repeatedcv", number=10, repeats=10) fitRpart <- train(Happiness ~ ., data=dtrain, method="rpart", trControl = fitControl) testRpart <- predict(fitRpart, newdata=dtest) dtest contains 1296 observations, so I expected testRpart to produce a vector of length 1296. Instead it's 1077 long, i.e. 219 short. When I ran the prediction on the first 220 rows of dtest , I got a predicted result of

I would like to be able to generate a confidence interval from a model that I create with the package caret. This can be done using predict(model, data, interval = "confidence") when the model is created with lm() . However, when I try the same command with a model created with caret's train() function, I get the following error: Error in extractPrediction(list(object), unkX = newdata, unkOnly = TRUE, : unused argument (interval = "confidence") This is true even when I set method = "lm" in the train function. Does anyone know how to get a confidence interval from such an object? Preferably

Is there anyway we could print iteration when using the caret::train function in parallel? I know there is option called verbose but it seems it doesn't print anything if I use multicore. I've found a solution. All we need is to register cores via makeCluster function. library(doSNOW) cl <- makeCluster(30, outfile="") registerDoSNOW(cl) In this way, the log will be printed in console. I've tested on regular R/ Rstudio/ Rserver in mac/window/ubuntu (even AWS) For example, iris <- iris[1:100,] iris$Species <- as.factor(as.character(iris$Species)) tc <- trainControl(method="LGOCV",

When I install caret with. install.packages("caret", dependencies=c("Depends", "Suggests")) library(caret) ## Loading required package: lattice ## Loading required package: ggplot2 Error in LoadNamespace(i, c(lib.loc, .libPaths()), versionCheck=vI[[i]]): there is no package called 'digest' Error: package 'ggplot2' could not be loaded. So I resolve the issue with the package digest by installing caret using this code and what do I get again: install.packages("caret", dep="TRUE") library(caret) ## Loading required package: lattice ## Loading required package: ggplot2 Error in LoadNamespace(i, c

I am facing the following errors while trying to install the caret package in R. g++: error: /tmp/Rtmp2Tos7n/R.INSTALL2e6e30153a74/nloptr/nlopt-2.4.2/lib/libnlopt_cxx.a: No such file or directory make: *** [nloptr.so] Error 1 ERROR: compilation failed for package ‘nloptr’ * removing ‘/rmt/csfiles/pgrads/mava290/R/x86_64-suse-linux-gnu-library/3.1/nloptr’ Warning in install.packages : installation of package ‘nloptr’ had non-zero exit status ERROR: dependency ‘nloptr’ is not available for package ‘lme4’ * removing ‘/rmt/csfiles/pgrads/mava290/R/x86_64-suse-linux-gnu-library/3.1/lme4’ Warning in