similar to: Strange indices of support verctors from e1071

 Hello   I have questions about gbm package.  It seems we have to devide data to two part (training set and test set) for first.   1- trainig set for running of gbm function 2- test set for gbm.perf      is it rigth? I have 123 sample that I devided 100 for trainig and 23 for test.   So, parameter of cv.folds in gbm function is for what?   Thanks alot Azam       [[alternative HTML

I expected, that I will get the same prediction, if I multiply the weights for all classes with a constant factor, but I got different results. Please look for the following code. > library(e1071) > data(Glass, package = "mlbench") > index <- 1:nrow(Glass) > testindex <- sample(index, trunc(length(index)/5)) > testset <- Glass[testindex, ] > trainset <-

Full_Name: Juergen Rose Version: 2.8.0 (2008-10-20) OS: Linux 2.6.27.4 x86_64 Intel Submission from: (NULL) (87.185.220.122) If I start as ordinary user rose R and help.start(), the help is displayed in emacs. If I do as the user root, file:///tmp/Rtmpyzlc7Y/.R/doc/html/index.html is shown as expected in a firefox windows. So it seems to be connected with my private configuration. But I can not

My data looks like: A,B,C,D,Class 1,2,0,2,cl1 1,5,1,9,cl1 3,2,1,2,cl2 7,2,1,2,cl2 2,2,1,2,cl2 1,2,1,5,cl2 0,2,1,2,cl2 4,2,1,2,cl2 3,5,1,2,cl2 3,2,12,3,cl2 3,2,4,2,cl2 **The steps followed are: trainfile <- read.csv("TrainFile",head=TRUE) datatrain <- subset(trainfile,select=c(-Class)) classtrain <- (subset(trainfile,select=Class)) rf <- randomForest(datatrain, classtrain)

Hi, I am looking for a R package to draw 3d plot. But not in a static way like scatterplot3d or stuff like that. I would like to make rotate the plot, to zoom/unzoom etc..., actually to render the graph 'dynamic'... (for the biologist and bioinformatician, a R package which permitts to reproduce what pdb viewer does). Does a Way exist to do something like that in R ? Thanks,

Hi, I am trying to use svm for regression data. this is how my data looks like: >dataTrain x y z 1 4 6 2 5 4 3 7 5 >classTrain a 2 3 4 >dataTest x y z 1 7 2 2 8 3 >classTest a 3 4 5 building the model model<-svm(dataTrain,classTrain,type="nu-regression") pred <- predict(model, dataTest) > pred 1 2 3.008842 3.120078 I

Hi, I would like to some excel files with some worksheets. I tried this with the following R script: library(gdata) i<-1 rc<-0 while(rc != "try-error") { wksh<-try(read.xls("cluster-microarray-FW.xls",sheet=i,verbose=TRUE,perl="perl")) rc<-class(wksh) print(sprintf("------- i=%2d rc=%s ---------------",i,rc)) if (rc !=

Hi, is there any chance to install glmnet with gcc-4.5.2? For me it fails on all systems with: trying URL 'http://mirrors.softliste.de/cran/src/contrib/glmnet_1.7.tar.gz' Content type 'application/x-gzip' length 522888 bytes (510 Kb) opened URL ================================================== downloaded 510 Kb * installing *source* package ?glmnet? ... This package has only

The second beginner question. I want to create a new dataframe, where each element of the original dataframe is translated to 1 if it was "+", to 0 if it was "-" to -1 otherwise. I could do with: Lines <- "a b c d + - + + + + + - + 1 - '+ ' - + + + + N - +" DF <-

Dear Clara, Thanks for the reply. I am forwarding your message to the list, ok. When I wrote was a way of get further information to help the helpers. happy holidays, milton ---------- Forwarded message ---------- From: Clara Brück <clara_brueck@web.de> Date: 2009/12/30 Subject: Re: [R] Negbin Error Warnings To: milton ruser <milton.ruser@gmail.com> Dear Milton, Thanks for

Dear R-help, First I apologize if my question is quite simple. I need add some of data in the first place my dataset, how can I do that. I have tried with rbind, but I did not succes. 0.1 3.6 0.4 0.9 rose 4.1 4.0 1.2 1.2 rose 4.4 3.2 1.9 0.5 rose 4.6 1.1 1.1 0.2 rose For example,

Hi all I am using the caret package and having difficulty in obtaining the results using regression, I used the glmnet to model and trying to get the coefficients and the model parameters I am trying to use the extractPrediction to obtain a confusion matrix and it seems to be giving me errors. x<-read.csv("x.csv", header=TRUE); y<-read.csv("y.csv", header=TRUE);

Hi, I have gote the following data x1 <- c(rep(1,6),rep(4,7),rep(6,10)) x2 <- rnorm(length(x1),6,1) data <- data.frame(x1,x2) and I would like to compute the mean of the x2 for each individual of x1, i. e. x1=1,4 and 6? Thank you very much in advance, Amori [[alternative HTML version deleted]]

Hello, Everyone. Does anyone know how to create a Nightingale’s Rose chart by using R? Hopefully, the graph could be displayed like this: http://mbostock.github.com/protovis/ex/crimea-rose.html Thanks a lot. Kind regards, Henry [[alternative HTML version deleted]]

Dear all, I'm trying to compile R 2.9.1 on my home directory under debian, and as I need to play with RPy, I tryed compile R using: ./configure --enable-R-shlib But, during the compilation, I get the error below: ------------------------------------- using as R_SHELL for scripts ... /bin/sh configure: creating ./config.status config.status: creating Makeconf config.status: creating Makefile

Dear R Gurus, I spent some time in looking for help but didn't find a way to do what I want. I do have a vector (in Degrees) containing of 360 elements, one element per degree on a circle. The data is dimensionless and in the range of -0.2 to 0.5. An Example: Wind Dir [degrees], Value 1, 0.1 2 , 0.3 3 , 0.01 .,. .,. 180,-0.01 181,-0.2 .,. .,. .,. 359,.0.3 360,.0.5 Now I want to have

High, on all of my computers the first entry in libPaths for root was /usr/lib64/R/library or /usr/lib/R/library. Now it change at one (lynx) anyway to root at lynx:/root(2)# R R version 2.12.1 (2010-12-16) Copyright (C) 2010 The R Foundation for Statistical Computing ISBN 3-900051-07-0 Platform: x86_64-pc-linux-gnu (64-bit) R is free software and comes with ABSOLUTELY NO WARRANTY. You are

Dear R-experts, I am installing new libraries using install.packages("ggplot2",dependencies=T). But I perceive that many dependencies are already installed. As I am using a low-band internet, how can avoid reinstall installed libraries? cheers milton [[alternative HTML version deleted]]

Dear R-experts, I am installing new libraries using install.packages("ggplot2",dependencies=T). But I perceive that many dependencies are already installed. As I am using a low-band internet, how can avoid reinstall installed libraries? cheers milton [[alternative HTML version deleted]]

Dear all, I have a probability of presence of distribution of a species of interest (varying from 0 to 1 in continuous form) and I have a set of points where I know that species really occurs. But I don´t have points of absence. So, for each true presence I know the estimated presence. I would like to know how can I compute AUC, taking account these Available data. Best wishes,