similar to: 2 questions on matrix manipulation in R

Hi, I am using coxph in simulations and I want to store the "robust se" (or "se2" in frailty models) for each replicate. Is there a function to retrieve it, like vcov() for the variance estimate? Thanks! Lei Liu Assistant Professor Division of Biostatistics and Epidemiology Dept. of Public Health Sciences School of Medicine University of Virginia 3181 Hospital West

Hi all, I am using "lm" to fit some anova factor models with interactions. The default setting for my unordered factors is "treatment". I understand the resultant "lm" coefficients for one factors, but when it comes to the interaction term, I got confused. > options()$contrasts unordered ordered "contr.treatment"

Hi there, I have a question on fitting data by coxme. In particular I want to fit a random intercept and random slope cox model. Using the rats dataset as an example, I generated another covariate x2 and want to specify a random slope for x2. Here is my code: x2=matrix(rep(runif(50), 3), 50, 3) x2=as.vector(t(x2)) rats2=cbind(rats, x2) But when I used the coxme function as follows, it gave

Hi there, I am reading the 2004 paper "Smoothing with mixed model software" in Journal of Statistical Software, by Ngo and Wand. I tried to run their first example in Section 2.1 using R but I had some problems. Here is the code: library(nlme) fossil <- read.table("fossil.dat",header=T) x <- fossil$age y <- 100000*fossil$strontium.ratio knots <-

Hi there, I want to install the "adapt" package, which is available at http://cran.r-project.org/src/contrib/Archive/adapt/. This package cannot be directly installed by "install packages" menu in R. So I downloaded the zip file into the hard drive. But I couldn't install it using "install packages from local zip files". I also tried to unzip these files in

Hi there, After I fitted a cox model, I used vcov to obtain the variance of the parameter estimate. It worked correctly in R 1.9.1. But it failed in R 2.0.0 and the error message is Error in vcov(cox.1) : no applicable method for "vcov" I don't know if it is a bug or there is some update on this function. Thanks! Lei Liu Assistant Professor Division of Biostatistics and

Hi there, I want to make trajectory plots for data as follows: ID time y 1 1 1.4 1 2 2.0 1 3 2.5 2 1.5 2.3 2 4 4.5 2 5.5 1.6 2 6 2.0 ... That is, I will plot a growth curve for each subject ID, with y in the y axis, and time in the x axis. I would like to have all growth curves in the same plot. Is there

Hi there, I am using SAS Proc NLMIXED to maximize a likelihood with multivariate normal random effects. An example is the two part random effects model for repeated measures semi-continous data with a cluster at 0. I use the "model y ~ general(loglike)" statement in Proc NLMIXED, so I can specify a general log likelihood function constructed by SAS programming statements. Then the

Dear R users, Basically, from the following arbitrary data set: a <- data.frame(id=c(c("A1","A2","A3","A4","A5"),c("A3","A2","A3","A4","A5")),loc=c("B1","B2","B3","B4","B5"),clm=c(rep(("General"),6),rep("Life",4))) > a

Hello, I'm new in R and I want to do one thing that is very easy in excel, however, I cant do it in R. Suppose we have the data frame: data<- data.frame(A=c("a1","a2","a3","a4","a5")) I need to obtain another column in the same data frame (lets say B=c(b1,b2,b3,b4,b5) in the following way: b1=a1/(a1+a2+a3+a4+a5)

I would like to compare two data sets saved as text files (example below) to determine if both sets are identical(or if dat2 is missing information that is included in dat1) and if they are not identical list what information is different between the two sets(ie output "a1", "a3" as the differing information). The overall purpose would be to remove "a1" and

Hello I have a data set like below: plate.id well.id Group HYB rlt1 1 P1 A1 Control SKOV3hyb 0.190 2 P1 A2 Control SKOV3hyb 0.210 3 P1 A3 Control SKOV3hyb 0.205 4 P1 A4 Control SKOV3hyb 0.206 5 P1 A5 Control SKOV3hyb 0.184 385 P1 A1 ovca SKOV3hyb 0.184 386 P1 A2 ovca SKOV3hyb 0.229 387

Dear colleagues, I'd like to reshape a datafame in a long format to a wide format, but I do not quite get what I want. Here is an example of the data I've have (dat): sp <- c("a", "a", "a", "a", "b", "b", "b", "c", "d", "d", "d", "d") tr <- c("A",

Dear All, Here is a hypothetical sample (sorry for the clumsy code): A1 <- matrix(1:5, nrow=5, ncol=1) A2 <- matrix(6:10, nrow=5, ncol=1) A3 <- matrix(11:15, nrow=5, ncol=1) A4 <- matrix(16:20, nrow=5, ncol=1) A5 <- matrix(21:25, nrow=5, ncol=1) A6 <- matrix(26:30, nrow=5, ncol=1) B1 <- matrix(c(A1, A2, A3), nrow=5, ncol=3) B2 <- matrix(c(A2, A3, A4), nrow=5, ncol=3) B3

On Mon, 15 Dec 2003, jw schultz <jw@pegasys.ws> wrote: > OK, first pass on TODO complete. .... This hardlink bug report is nearly 21 months old... So I took a look at it using 2.5.7. See below. > BUGS --------------------------------------------------------------- > > Fix hardlink reporting 2002/03/25 > (was: There seems

Hi, How do I rename the column labels in the table? For Instance, if I have a table like this, and I want to have the column labels changed from "A1 A2 A3 A4 A5" to "Mike Kate Michelle Paul Young" A1 A2 A3 A4 A5 1 33 44 55 66 77 2 3 4 5 6 7 7 8 9 and my text file location is: ""/Users/MAC/Desktop/data.txt" When I type in

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I have a dataset that is basically structureless. Its dimension varies from row to row and sep(s) are a mixture of tab and semi colon (;) and example is HEADER1 HEADER2 HEADER3 HEADER3 A1 B1 C1 X11;X12;X13 A2 B2 C2 X21;X22;X23;X24;X25 A3 B3 C3 A4 B4 C4 X41;X42;X43 A5 B5 C5 X51 etc., say. Note that a blank

Please help me in writing the R code for this problem. I've been solving this for 4 days. It was hard for me to solve it. It's a simulation problem in R. The problem is My true model is a normal mixture which is given as 0.5 N(-0.8,1) + 0.5 N(0.8,1). This model has two components. I will get a random sample of size 100 from this model. I will do this 300 times. That means, I will have

We have a wireless network that uses 802.1x authentication, in which domain joined computers use their machine credentials to connect. Windows machines do this automatically, and until recently Linux computers could join using wicd, wpa-supplicant, and a simple script that would retrieve the machine password with tdbdump. ( specifically tdbdump -k SECRETS/MACHINE_PASSWORD/DOMAIN