Re: [R] ROC curve for each fold in one plot

List <r-help@r-project.org> > Subject: [R] ROC curve for each fold in one plot > > Hi all, > > I have tried a 5 fold cross validation using caret package with random forest > method on iris dataset as example. Then I need ROC curve for each fold: > > > > set.see

[R] ROC curve for each fold in one plot

Hi all, I have tried a 5 fold cross validation using caret package with random forest method on iris dataset as example. Then I need ROC curve for each fold: > set.seed(1) > train_control <- trainControl(method="cv", number=5,savePredictions = TRUE,classProbs = TRUE) > output <-

Re: [R] ROC Curve: negative AUC

Thanks, Do you know how to correct it? Cheers, Bruno -- View this message in context: http://r.789695.n4.nabble.com/ROC-Curve-negative-AUC-tp4650469p4650530.html Sent from the R help mailing list archive at Nabble.com. __ R-help@r-project.org

[R] ROC Curve: negative AUC

Hi all, does anyone know why the area under the curve (AUC) is negative? I'm using ROC function with a logistic regression, package Epi. First time it happens... Thanks a lot! Bruno -- View this message in context: http://r.789695.n4.nabble.com/ROC-Curve-negative-AUC-tp4650469.html Sent

Re: [R] ROC Curve: negative AUC

wrong direction for ranking On Thu, Nov 22, 2012 at 1:58 PM, brunosm brunos...@gmail.com wrote: the area under the curve (AUC) is negative? I'm using ROC function with a logistic regression, package Epi. First time it happens... Thanks a lot! Bruno -- ==

Re: [R] ROC Curve: negative AUC

On Fri, Nov 23, 2012 at 7:58 AM, brunosm brunos...@gmail.com wrote: Hi all, does anyone know why the area under the curve (AUC) is negative? I'm using ROC function with a logistic regression, package Epi. First time it happens... Have you looked at the ROC curve? That should tell you

Re: [R] ROC curve

On 01/30/2012 08:52 PM, Josiane NJIWA wrote: Hello all, I am very new to R and i am facing two problems. First i didn't succeed changing the konsole language in english even after trying the line command set language='en'. I would like to plot ROC curves. I have a serie of 10 threshold

[R] ROC curve

Hello all, I am very new to R and i am facing two problems. First i didn't succeed changing the konsole language in english even after trying the line command set language='en'. I would like to plot ROC curves. I have a serie of 10 threshold tests that i do for 10 patients. The prediction

Re: [R] ROC curve

Hi Josiane, Concerning ROC curves, the package ROCR should do what you want to do. Use install.packages to add it to you library. Getting you data into a text file format, use read.delim to read into an data frame. Once you have a data frame, you can use the methods in ROCR to analyze the

Re: [R] ROC curve

On Jan 30, 2012, at 4:52 AM, Josiane NJIWA wrote: Hello all, I am very new to R and i am facing two problems. First i didn't succeed changing the konsole language in english even after trying the line command set language='en'. R is a functional language, so it shouldn't surprise you

[R] ROC curve in R

Hi, i have a fairly large amount of genomic data. I have created a dataframe which has Reference as one column and Variation as another. I want to plot a ROC curve based on these 2 columns. I have serached the R manual but I could not understand. Can anybody help me with the R code for plotting

Re: [R] ROC curve in R

On Jul 1, 2010, at 12:50 PM, ashu6886 wrote: Hi, i have a fairly large amount of genomic data. I have created a dataframe which has Reference as one column and Variation as another. I want to plot a ROC curve based on these 2 columns. I have serached the R manual but I could not

Re: [R] ROC curve in R

: r-help-boun...@r-project.org [mailto:r-help-boun...@r-project.org] On Behalf Of ashu6886 Sent: Thursday, July 01, 2010 9:51 AM To: r-help@r-project.org Subject: [R] ROC curve in R Hi, i have a fairly large amount of genomic data. I have created a dataframe which has Reference as one column

Re: [R] ROC curve in R

Try the ROCR package. http://rocr.bioinf.mpi-sb.mpg.de/ROCR.pdf Saeed On Thu, Jul 1, 2010 at 9:50 AM, ashu6886 ashu.infy.m...@gmail.com wrote: Hi, i have a fairly large amount of genomic data. I have created a dataframe which has Reference as one column and Variation as another. I want to

Re: [R] ROC curve in R

-Original Message- From: r-help-boun...@r-project.org [mailto:r-help-boun...@r-project.org] On Behalf Of ashu6886 Sent: Thursday, July 01, 2010 9:51 AM To: r-help@r-project.org Subject: [R] ROC curve in R Hi, i have a fairly large amount of genomic data. I have created

Re: [R] ROC curve in R

Read the ROCR package, it is very good. On Thu, Jul 1, 2010 at 9:50 AM, ashu6886 ashu.infy.m...@gmail.com wrote: Hi, i have a fairly large amount of genomic data. I have created a dataframe which has Reference as one column and Variation as another. I want to plot a ROC curve based on

Re: [R] ROC curve in R

On 07/01/2010 01:33 PM, Changbin Du wrote: Read the ROCR package, it is very good. Just be sure you really need an ROC curve. More often than not it gets in the way of understanding. Frank On Thu, Jul 1, 2010 at 9:50 AM, ashu6886ashu.infy.m...@gmail.com wrote: Hi, i have a

Re: [R] ROC curve

Dear Changbin, I want to know how to select the optimal decision threshold from the ROC curve? Depends on what optimal means. I think there are a bunch of different criteria used: - point closest to the ideal model - point furthest from the guessing model - these criteria may include costs,

Re: [R] ROC curve

On 05/24/2010 02:14 AM, Claudia Beleites wrote: Dear Changbin, I want to know how to select the optimal decision threshold from the ROC curve? Depends on what optimal means. I think there are a bunch of different criteria used: - point closest to the ideal model - point furthest from the

[R] ROC curve

HI, Dear R community, I want to know how to select the optimal decision threshold from the ROC curve? At what threshold will give the highest accuracy? Thanks! -- Sincerely, Changbin -- [[alternative HTML version deleted]] __

[R] ROC curve in randomForest

require(randomForest) rf.pred-predict(fit, valid, type=prob) rf.pred[1:20, ] 0 1 16 0. 1. 23 0.3158 0.6842 43 0.3030 0.6970 52 0.0886 0.9114 55 0.1216 0.8784 75 0.0920 0.9080 82 0.4332 0.5668 120 0.2302 0.7698 128 0.1336 0.8664 147 0.4272 0.5728 148 0.0490 0.9510 153

[R] ROC curve in randomSurvivalForest

I'm using randomSurvivalForest to predict survival from a rather small sample. As it's not enough data to have training and validation set, I rely on the Estimate of error rate computed by the randomForest. If I understand the method correctly, it repeatedly partitions the data into varying

[R] ROC curve and gains/lift chart

What is the difference between ROC curve and gains/lift chart? how to do them in R? Thanks. -- View this message in context: http://www.nabble.com/ROC-curve-and-gains-lift-chart-tp25083979p25083979.html Sent from the R help mailing list archive at Nabble.com.

Re: [R] ROC curve and gains/lift chart

Have look in the ROCR package and Example's. HTH Christian What is the difference between ROC curve and gains/lift chart? how to do them in R? Thanks. __ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do

[R] ROC curve using epicalc (after logistic regression) (re-sent)

Dear R-help, I am resending as I believe I screwed up the e-mail address to R-help earlier. Sorry for my lack of attention to detail, and for any inconvenience. I have also sent the question to the package maintainer, as suggested in the posting guide. Regards, Cliff -- Forwarded

[R] ROC curve using epicalc (after logistic regression)

Dear R-help list, I'm attempting to use the ROC routine from the epicalc package after performing a logistic regression analysis. My code is included after the sessionInfo() result. The datafile (GasketMelt1.csv) is attached. I updated both R and the epicalc packages and tried again before

[R] ROC curve from logistic regression

I know how to compute the ROC curve and the empirical AUC from the logistic regression after fitting the model. But here is my question, how can I compute the standard error for the AUC estimator resulting form logistic regression? The variance should be more complicated than AUC based on known

Re: [R] ROC curve from logistic regression

gallon li wrote: I know how to compute the ROC curve and the empirical AUC from the logistic regression after fitting the model. But here is my question, how can I compute the standard error for the AUC estimator resulting form logistic regression? The variance should be more complicated than

Re: [R] ROC curve from logistic regression

- sqrt(var) return(list(AUC=area, std=s)) } -Original Message- From: [EMAIL PROTECTED] [mailto:[EMAIL PROTECTED] On Behalf Of Frank E Harrell Jr Sent: Monday, September 08, 2008 8:22 AM To: gallon li Cc: r-help Subject: Re: [R] ROC curve from logistic regression gallon li wrote

Re: [R] ROC curve from logistic regression

Hi there, See ?lroc in the epicalc package. HTH, Jorge On Mon, Sep 8, 2008 at 4:02 AM, gallon li [EMAIL PROTECTED] wrote: I know how to compute the ROC curve and the empirical AUC from the logistic regression after fitting the model. But here is my question, how can I compute the