similar to: glmpath (new version 0.91)

We have uploaded to CRAN the first version of glmpath, which fits the L1 regularization path for generalized linear models. The lars package fits the entire piecewise-linear L1 regularization path for the lasso. The coefficient paths for L1 regularized glms, however, are not piecewise linear. glmpath uses convex optimization - in particular predictor-corrector methods- to fit the

We have uploaded to CRAN the first version of glmpath, which fits the L1 regularization path for generalized linear models. The lars package fits the entire piecewise-linear L1 regularization path for the lasso. The coefficient paths for L1 regularized glms, however, are not piecewise linear. glmpath uses convex optimization - in particular predictor-corrector methods- to fit the

Hi all, I'm relatively new to using R, and have been trying to fit an L1 regularization path using coxpath from the glmpath library. I'm interested in using a cross validation framework, where I crossvalidate on a training set to select the lambda that achieves the lowest error, then use that value of lambda on the entire training set, before applying to a test set. This seems to entail

The problem first appeared in R 2.6.1 and is still there in R 2.6.2 On Windows running R CMD check command for glmpath package fails. The reason seems to be that when R is running the examples file (glmpath-Ex.R), it skips about 50 lines and as a result gives a syntax error. I'm working with a modified version of the CRAN glmpath 0.94. My version happens to give a more clear example of a

Hi, I am new to model selection by coefficient shrinkage method such as lasso. And I became particularly interested in variable selection in Cox regression by lasso. I became aware of the coxpath() in R package glmpath does lasso on Cox model. I have tried the sample script on the help page of coxpath(), but I have difficult time understanding the output. Therefore, I would greatly appreciate if

Hi all, I am using glampath package for L1 regularized logistic regression. I have read the article " L1 regularization path algorithm for GLM" by park and Hastie (2006). One thing I can't understand that how to find best lambda for my prediction. I want to use that lambda for the prediction not the entire set. thanks. -- View this message in context:

Hi, I am analyzing a set of variables in order to create a survival model for a set of patients. I have checked the reference manual for glm path and coxpath in order to achieve it. However I have a doubt about the class of the covariates I can use with the last mentioned package. In the example, the package loads a list called "lung.data". This object has a matrix with the covariate

I'm trying to do LASSO in R with the package glmpath. However, I'm not sure if I am using the accompanying prediction function *predict.glmpath()* correctly. Suppose I fit some regularized binomial regression model like so: library(glmpath);load(heart.data);attach(heart.data); fit <- glmpath(x, y, family=binomial) Then I can use predict.glmpath() to estimate the value of the

Dear colleagues, I hope someone can help me with my problem. I have fitted a cox model with the following syntax: # cox01def <-cph(Surv(TEVENT,EVENT) ~ ifelse(AGE>50, (AGE-50)^2,0) + BMI + # HDL+DIABETES +HISTCAR2 + log(CREAT)+ as.factor(ALBUMIN)+STENOSIS+IMT,data # = XC, x=T, y=T, surv=T) *1 Furthermore I have estimated my beta's also with a Lasso method - Coxpath ( from

Hi R-users! I am trying to learn how to use the glmpath package. I have a dataframe like this > dim(data) [1] 605 109 and selected the following > response <- data[,1] > features<-as.matrix(data[,3:109]) > mymodel <- glmpath(features,response, family = binomial) Error in if (lambda <= min.lambda) { : missing value where TRUE/FALSE expected Reading the glmpath pdf, I

Hi, perhaps you can help me to find out, how to find the best Lambda in a LASSO-model. I have a feature selection problem with 150 proteins potentially predicting Cancer or Noncancer. With a lasso model fit.glm <- glmpath(x=as.matrix(X), y=target, family="binomial") (target is 0, 1 <- Cancer non cancer, X the proteins, numerical in expression), I get following path (PICTURE

Hello: I would like to obtain probability of an event for one single patient as a function of time (from survfit.coxph) object, as I want to find what is the probability of an event say at 1 month and what is the probability of an event at 80 months and compare. So I tried the following but it fails miserably. I looked at some old posts but could not figure out the solution. Here's what I did

Hello R helpers: *My first message didn't pass trough filter so here it's again* I would like to obtain probability of an event for one single patient as a function of time (from survfit.coxph) object, as I want to find what is the probability of an event say at 1 month and what is the probability of an event at 80 months and compare. So I tried the following but it fails miserably. I

Hi Claire, I'm replying and CC-ing to the R-help list to get more eyes on your question since others will likely have more/better advice, and perhaps someone else in the future will have a similar question, and might find this thread handy. I've removed your specific research aim since that might be private information, but you can include that later if others find it necessary to know

> -----Original Message----- > From: win32utils-devel-bounces@rubyforge.org > [mailto:win32utils-devel-bounces@rubyforge.org] On Behalf Of > Zach Dennis > Sent: Thursday, May 05, 2005 4:25 PM > To: Development and ideas for win32utils projects > Subject: Re: [Win32utils-devel] Ruby code to create junctions > on NTFS volumes. > > > Timothy Byrd wrote: > >

Hi, When I install new packages from CRAN, I frequently find that some packages were missing from the download queue. For example, on one of my computer with R2.6.2, I can not find package glmpath from the download queue. On my other computer with R2.5.1, I could still find that particular package. What could be the reason for this? Is this computer related or R version related? I downloaded the

Here is some Ruby code for creating junctions on NTFS volumes. These are the main routines: Dir.junction?(dir) => true if dir is a junction Dir.reparse_target(dir) => returns the target of a junction, or dir Dir.create_junction(junctName, existingTarget) => creates a junctName junction pointing to existingTarget (also used (Dan''s?) GetLastError code and did some simple

Full_Name: Uwe F. Mayer Version: 2.9.1 OS: SunOS myhost 5.10 Generic_120012-14 i86pc i386 i86pc Solaris Submission from: (NULL) (216.113.168.130) Standard configuration (that is, not specifying --without-recommended-packages) leads to the following error: gmake[2]: Leaving directory `/usr/local/opt/build/R-2.9.1/src/library' gmake[1]: Leaving directory

There may be benefits to having a machine learning method that explicitly targets covariate balance. We have experimented with optimizing the weights directly to obtain the best covariate balance, but got some strange solutions for simple cases that made us wary of such methods. Machine learning methods that yield calibrated probability estimates should do well (e.g. those that optimize the

library(glmpath) data(heart.data) # heart.data is a list, $y a vector, $x a matrix data <- data.frame(x=I(heart.data$x), y = heart.data$y) > data[1:2,] x.1 x.2 x.3 x.4 x.5 x.6 x.7 x.8 x.9 y 1 160 12 5.73 23.11 1 49 25.3 97.2 52 1 2 144 0.01 4.41 28.61 0 55 28.87 2.06 63 1 > dimnames(heart.data$x)[[2]] [1] "sbp"