caret is an R package for classification and regression training. It provides a standardized interface to several of R's machine learning packages, along with utilities for training and plotting.
I'm using the R GBM package for boosting to do regression on some biological data of dimensions 10,000 X 932 and I want to know what are the best parameters settings for GBM package especially (n.trees, shrinkage, interaction.depth and…
I'm using the caret package to analyse Random Forest models built using ranger. I can't figure out how to call the train function using the tuneGrid argument to tune the model parameters.
I think I'm calling the tuneGrid argument wrong, but can't…
I am running elastic net regularization in caret using glmnet.
I pass sequence of values to trainControl for alpha and lambda, then I perform repeatedcv to get the optimal tunings of alpha and lambda.
Here is an example where the optimal tunings for…
I want to parallelize the model fitting process for xgboost while using caret. From what I have seen in xgboost's documentation, the nthread parameter controls the number of threads to use while fitting the models, in the sense of, building the…
Is there a way to perform stratified cross validation when using the train function to fit a model to a large imbalanced data set? I know straight forward k fold cross validation is possible but my categories are highly unbalanced. I've seen…
I have a dataset consisting of 20 features and roughly 300,000 observations. I'm using caret to train model with doParallel and four cores. Even training on 10% of my data takes well over eight hours for the methods I've tried (rf, nnet, adabag,…
Using R 3.2.0 with caret 6.0-41 and randomForest 4.6-10 on a 64-bit Linux machine.
When trying to use the predict() method on a randomForest object trained with the train() function from the caret package using a formula, the function returns an…
I would like to change the metric from RMSE to RMSLE using the
caret library
Given some sample data:
ivar1<-rnorm(500, mean = 3, sd = 1)
ivar2<-rnorm(500, mean = 4, sd = 1)
ivar3<-rnorm(500, mean = 5, sd = 1)
ivar4<-rnorm(500, mean = 4, sd…
I am trying to install R package caret
Which gives me ERROR: dependencies ‘ggplot2’, ‘reshape2’, ‘BradleyTerry2’ are not available for package ‘caret’
I tried to install each of this individually, which again shows installation going on, ending with…
I'm trying to make a k-fold CV for several classification methods/hiperparameters using the data available at
http://archive.ics.uci.edu/ml/machine-learning-databases/undocumented/connectionist-bench/sonar/sonar.all-data.
This set is made of 208…
I am trying to impute values by passing "knnImpute" to the preProcess argument of Caret's train() method. Based on the following example, it appears that the values are not imputed, remain as NA and are then ignored. What am I doing wrong?
Any…
The mlp method in package caret calls the mlp function in RSNNS. In the RSNNS package, I can set up as many hidden layers in the neural net as I like by setting the size parameter, e.g.
data(iris)
#shuffle the vector
iris <-…
Context and error message
I try to fit a two-class prediction model using glmnet within caret. I incur an error when using the caret default tune grids. I don't think it is due to wrongly formatted data because, when specifying my own tuning grid,…
I would like to cross validate a GAM model using caret. My GAM model has a binary outcome variable, an isotropic smooth of latitude and longitude coordinate pairs, and then linear predictors. Typical syntax when using mgcv is:
gam1 <- gam( y ~ s(lat…
I am new to caret, and I just want to ensure that I fully understand what it’s doing. Towards that end, I’ve been attempting to replicate the results I get from a randomForest() model using caret’s train() function for method="rf". Unfortunately, I…
