similar to: penalized maximum likelihood estimator

Hi there. I am trying to install SJava on my windows xp machine. I downloaded the windows source file SJava_0.69-0.tar.gz from the web site http://www.omegahat.org/RSJava/ I have folloed the XP command line instructions as directed in the table underneath the download link: cd $RHOME/src/library unzip SJava_0.69-0.zip cd SJava ./configure.win $RHOME cd $RHOME/src/gnuwin32 make pkg-SJava I

Dear R list, From the lrm() binary logistic model we derived the G2 value or the likelihood-ratio chi-squared statistic given as L.R. model, in the output of the lrm(). How can this value be penalized for non-linearity (we used splines in the lrm function)? lrm.iRVI <- lrm(arson ~ rcs(iRVI,5), penalty=list(simple=10,nonlinear=100,nonlinear.interaction=4)) This didn’t work

hi all, I have a binary data set and am now confronted with a "separation" issue. I have two predictors, mood (neutral and sad) and game type (fair and non-fair). By "separation", I mean that in the non-fair game, whereas 20% (4/20) of sad-mood participants presented a positive response (coded as 1) in the non-fair game, none of neutral-mood participants did so (0/20). Thus,

Hi, I got two questions and would really appreciate any help from here. First, is the penalized maximum likelihood estimation(Firth Type Estimation) only fit for binary response (0,1 or TRUE, FALSE)? Can it be applied to multinomial logistic regression? If yes, what's the formula for LL and U(beta_i)? Can someone point me to the right reference? Second, when I used *logistf *on a dataset with

What objective function is maximized by survreg with the default Weibull model? I'm getting finite parameters in a case that has the likelihood maximzed at Infinite, so it can't be a simple maximum likelihood. Consider the following: ############################# > set.seed(3) > Stress <- rep(1:3, each=3) > ch.life <- exp(9-3*Stress) > simLife <- rexp(9,

On 5/2/07, r-help-request@stat.math.ethz.ch < r-help-request@stat.math.ethz.ch> wrote: > > Send R-help mailing list submissions to > r-help@stat.math.ethz.ch > > To subscribe or unsubscribe via the World Wide Web, visit > https://stat.ethz.ch/mailman/listinfo/r-help > or, via email, send a message with subject or body 'help' to >

I use smooth.spline(x, y) in package modreg and I would like to get value of penalized log likelihood and preferable also its two parts. To make clear what I am asking for (and make sure that I am asking for the right thing) I clarify my problem trying to use the same notation as in help(smooth.spline): I want to find the natural cubic spline f(x) such that L(f) = \sum_{k=1}{n} w[k](y[k] -

Dear useRs, upon request, the VGAM package (currently version 0.7-1) has been officially released on CRAN (the package has been at my website http://www.stat.auckland.ac.nz/~yee/VGAM for a number of years now). VGAM implements a general framework for several classes of regression models using iteratively reweighted least squares (IRLS). The key ideas are Fisher scoring, generalized linear and

Dear R-users, I am checking the proportional hazard assumption of a cox model for a given covariate, let say Z1, after adjusting for other relavent covariates in the model. To this end, I fitted cox model stratified on the discrete values of Z1 and try to get beslow estimator for the baseline cumulative hazard function (H(t)) in each stratum. As far as i know, if the proportionality assumption

Dear all, I have an error message installing SJava package. So I searched web site(google) and R-mailing list to find a similar error message. But I couldn't find it. I installed R-2.1.1 like this on Fedora Core4 1) /configure --enable-R-shlib --with-libpng --with-jpeglib 2) make -> make check -> make install and then issuing on shell prompt (red lines are error messages) R CMD

Hi, I installed SJava 0.66-1 on my linux RH 7.2 machine. I am using R-1.7.1. I set LD_LIBRARY_PATH up then called library(SJava) and it was fine. But when I called .JavaInit(), I got weird error that states it could not find java/lang/Hashtable. The session is below and shows my java configuration. I am using j2sdk1.4.2_01 from Sun. Thank you very much. Weiming Zhang > .javaConfig

Hi,all, I have a problem about launching SJava in R from external application (Cytoscape). My R version is 2.1.0 and Sjava version is 0.68. R is installed by issuing 1. configure --enable-R-shlib 2. make 3. make check 4. make install SJava is installed by issuing "R CMD INSTALL -c SJava_version_.tar.gz". The LD_LIBRARY_PATH is set in .bash_profile by

Hello all, I am using R 2.4.0 and SJava 0.69-0 on linux. I am not able to install SJava on R. The following errors appear when installing: ... ** R ** inst WARNING: use of install..R is no longer supported ** preparing package for lazy loading Creating a new generic function for "merge" in "SJava" ** help >>> Building/Updating help pages for package

Hi, I had some Java code that worked with SJava 0.65 under R 1.8.*. I'm trying to get it to work with R 2.0.0. My JVM is Sun 1.5.0 (running on Fedora Core 2) I downloaded and installed SJava 0.65 in my personal directory using R CMD INSTALL SJava-0.65.tar.gz -l ~/src/Rlibrary and before starting R I sourced RJava.bsh. However after loading the SJava library if do javaConfig() I get

Colleagues, How i can solve this error when i install SJava package Thanks ---------------- R CMD INSTALL -c /usr/local/lib/R/SJava_0.69-0.tar.gz * installing to library ?/usr/local/lib/R/site-library? * installing *source* package ?SJava? ... checking for java... /usr/lib/jvm/java-6-sun/bin/java Java VM /usr/lib/jvm/java-6-sun/bin/java checking for javah... /usr/lib/jvm/java-6-sun/bin/javah

I am running R-1.81, apple's JVM installed with OS 10.3.2, and installed Sjava-0.65.X (a patched version of Sjava for MacOS from Simon Urbanek, which I know is inherently dangerous, but...). This version installed fine and some aspects seem to work as expected. However, this is one of the examples and causes R to hang. Any insights? What other information should I provide to make it easier

Hi, I'm try to use the SJava package. The install is OK. In R I have this error message: -------------------------- > library(SJava) Error in dyn.load(x, as.logical(local), as.logical(now)) : unable to load shared library "/opt/lib/R/site-library/SJava/libs/SJava.so": libRSNativeJava.so: cannot open shared object file: No such file or directory Error in

Hi again! I'm trying to download SJava from the http://www.omegahat.org/RSJava/ website. I'm trying to get the binary. I download the version from BDR's website. When I unzip the file via unzip.exe, the new folder appears as SJAVA (upper case). >library(SJava) Error in library(SJava) : There is no package called 'SJava' >library(SJAVA) Error in library(SJAVA) :

Dear R users, I was happy to find a binary library for SJava in the last released of R (1.5.1)... I am able to load the library... but I have some problems to run this library: > .JavaInit() Error in .JavaInit() : Couldn't start Java Virtual Machine: Can't create Java Virtual Machine > javaConfig() $classPath [1] "F:/Program

Sorry for this off-topic subject. I am fighting for running SJava under Windows. SJava_0.64 (compiled by Simon Urbanek, thanks), R 1.6.2, Java JDK 1.4.0_02, Windows XP pro: > library(SJava) > .JavaInit() Error in .JavaInit() : Couldn't start Java Virtual Machine: Cannot find the Omegahat interface manager class. Check you classpath! > # And the second time... > .JavaInit() It