Displaying 20 results from an estimated 200 matches similar to: "(Censboot, Z-score, Cox) How to use Z-score as the statistic within censboot?"
2007 Aug 16
1
(coxph, se) Obtaining standard errors of coefficients from coxph to store
Hi all,
I'm wanting to be able to find and store the z-score of coxph below: -
modz=coxph(Surv(TSURV,STATUS)~RAGE+DAGE+REG_WTIME_M+CLD_ISCH+POLY_VS,
data=kidneyT,method="breslow")
I know summary(modz) will give me this, but how do i extract the
standard error or z-score values in a similar way to obtaining the
coefficients by coef(modz) ? I think it must be something to do with
2007 Sep 10
0
Loop and loop output [Cox model, for, function, loglik]
Dear R users,
Below I have written 4 functions CIT1, CIT2a and CIT2b and CIT3 which
recode a variable CLD_ISCH into 3 new variables(T1 T2 T3), I wish to use
T1, T2 and T3 based on the values of tf1 and tf2.
(NOTE:- T2a is used to create T2 in a long winded manner due to my lack
of programming experience)
I then attach T1 T2 and T3 to a dataset KidneyT that contains other
variables i wish to use
2005 Dec 19
0
Package "boot": How to construct CI from censboot object?
Dear all,
I run the example of "censboot" contained in "boot" package. But, I can't
find the confidence interval of the resulted "censboot" object. Any idea ?
> aml.fun <- function(data) {
+ surv <- survfit(Surv(time, cens)~group, data=data)
+ out <- NULL
+ st <- 1
+ for (s in 1:length(surv$strata)) {
+
2004 Jun 07
1
Censboot Warning and Error Messages
Good day R help list!!!
I've been trying to do Bootstrap in R on Censored data. I encountered
WARNING/ERROR messages which I could not find explanation.
I've been searching on the literature for two days now and still can't find
answers. I hope there's anyone out there who can help me
with these two questions:
1. If the "Loglik converged before variable..." message
2011 Sep 12
1
nested anova<-R chrashing
Hi,
I tried to do a nested Anova with the attached Data. My response
variable is "survivors" and I would like to know the effect of
(insect-egg clutch) "size", "position" (of clutch on twig) and "clone"
(/plant genotype) on the survival of eggs (due to predation). Each plant
was provided with three different sizes of clutches (45,15,5) and had
2003 Aug 20
1
query on converting survey data from one structure to another
Dear R users,
I am trying to convert a dataset from one format to several rectangular
datasets. A consultant helped design the data entry program for our survey
using Delphi/Pascal and for each household the information is stored in a
file called "EA-HM-HH.TXT" where EA is the enumeration area number, HM is
the homestead number and HH is the household number. Within this file the
2003 Aug 30
1
is zscore() deprecated or Windows only?
Hi
I was looking through the help on how to get standardized scores and
came across an anomaly. The help.search("zscore") reports there is
such a function in R.base. However, when I try to get help on zscore
it reports no such function and says that R.base in built for win32.
I'm running the Mac OS X version of R with the smorgasboard of
packages that are included in that
2007 Oct 23
2
Using a data frame in a function call
Hi,
I am writing a basic function to extract the z scores for some linear
regression coefficients:
zscore<-function( y, x) {
lm<-lm( y ~ x )
z <- coef(lm)/sqrt(diag(vcov(lm)))
return(z)
}
I would like to pass a dataframe to the function as a argument so the
function call changes from
zscore(df$y1,df$x1)
to
zscore(y1,x1,data=df)
but I am not sure how to reference the data
2000 Jul 05
2
couldn't find function "..."
Hi,
R 1.0.1, on Linux(mandrake/RedHat).
I am trying to write my first function using R and I need help figuring
out the error I have indicated in the Subject line above. The purpose
of the function is not to "wow" anyone, but just to serve as a stepping
stone so that I might write more complicated functions in the future.
First I created my function named "CIfunc" and saved
2004 Apr 21
1
Boot package
Dear mailing list,
I tried to run the example for the conditional bootstap written in the help file
of censboot. I got the following result:
STRATIFIED CONDITIONAL BOOTSTRAP FOR CENSORED DATA
Call:
censboot(data = aml, statistic = aml.fun, R = 499, F.surv = aml.s1,
G.surv = aml.s2, strata = aml$group, sim = "cond")
Bootstrap Statistics :
original bias std. error
t1*
2000 Jul 06
0
Fwd: Re: couldn't find function ...
Forwarded Message:
> To: Steve Arthur <sarthur at crick.protogene.com>
> From: Thomas Lumley <thomas at biostat.washington.edu>
> Subject: Re: [R] couldn't find function "..."
> Date: Wed, 5 Jul 2000 16:16:25 -0700 (PDT)
> -----
> On Wed, 5 Jul 2000, Steve Arthur wrote:
>
> > Hi,
> >
> > R 1.0.1, on Linux(mandrake/RedHat).
2006 Sep 02
2
Cuzick's test for trend
Hi All:
I was looking for, but could not locate in the packages, or in the R archive searches if there exists an R implementation of Cuzick's test of trend. The test is described as follows:
An extension of the Wilcoxon rank-sum test is developed to handle the situation in which a variable is measured for individuals in three or more (ordered) groups and a non-parametric test for trend
2000 Apr 22
1
censored bootstrap
Hello,
I have been trying to use the censored bootstrap function 'censboot'
from the library boot, with the function 'survfit' from the library
survival5. My code is:
surv.fun <-function(data) {
sur<-survfit(Surv(data[,1],data[,2]), data=data)
}
c.boot<-censboot(m,surv.fun,R=99)
m is my data set
I get the error message:
Error in
2008 Jan 25
2
Help Me to Adjust the R Code
Hi,
The following code, from Angelo Canty article on line "Resampling Methods in R: the boot Package, 2002", works fine for Angelo Canty using R 2.6.0 on Windows XP.
It also works for me using R 1.2.1 and S-PLUS 2000 on Windows XP after installing the S-PLUS bootstrap library, with slight differences in my outputs.
> library(boot)
> library(survival)
>
2006 Mar 28
0
Help with the code
library(survival) library(boot) data=NULL lambda=NULL result=NULL pat=rep(1:102,each=1) trt=rep(c(1,0),51) status=rep(1,102) site=rep(1:51, each=2) nr.datasets=100 seed=2006 beta=log(1/2) for (i in 1:51) { lambda[i]=1+((3-1)/50)*(i-1)} lambda1=rep(lambda, each=2) dummy=rep(c(exp(beta),1),51) elf=lambda1*dummy r=70 #the number of bootstrap replicates
2008 Jan 26
0
Who can tell me how I adjust the R code for bootstrapping the Cox model?
Hi,
The following code, from Angelo Canty article on line "Resampling Methods in R: the boot Package, 2002", works fine for Angelo Canty using R 2.6.0 on Windows XP.
It also works for me using R 1.2.1 and S-PLUS 2000 on Windows XP after installing the S-PLUS bootstrap library, with slight differences in my outputs.
> library(boot)
> library(survival)
>
2008 Jan 25
0
Please help me
Hi, The following code, from Angelo Canty article on line "Resampling Methods in R: the boot Package, 2002", works fine for Angelo Canty using R 2.6.0 on Windows XP.
It also works for me using R 1.2.1 and S-PLUS 2000 on Windows XP after installing the S-PLUS bootstrap library, with slight differences in my outputs.
> library(boot)
> library(survival)
2008 Jan 26
1
(no subject)
Hi, The following code, from Angelo Canty article on line "Resampling Methods in R: the boot Package, 2002", works fine for Angelo Canty using R 2.6.0 on Windows XP.
It also works for me using R 1.2.1 and S-PLUS 2000 on Windows XP after installing the S-PLUS bootstrap library, with slight differences in my outputs.
> library(boot)
>
2010 Oct 21
1
error opening connection 64bit R under win7 64bit
-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA1
Hi,
I just installed R (2.11.1) 64bit under Windows 7 64 bit
When trying to readin files I get the following error message:
> > source(file="C:\\Users\\me\\Documents\\My
PhD\\Modelling\\R\\Scripts\\Functions\\functions 20jan10.r")
Error in file(file, "rt") : cannot open the connection
In addition: Warning message:
In
2007 Apr 24
0
new version of seqinR
Dear useRs,
The seqinR package is a library of utilities to retrieve and analyse
biological sequences.
A new version of seqinR, seqinR 1.0-7, has been released on CRAN.
Here is a summary of changes:
o A new *experimental* function extractseqs() to download
sequences thru zlib compressed sockets from an ACNUC server is released.
Preliminary tests suggest that working with about 100,000