Hi all,
I am trying to get bootstrap resampled estimates of covariates in a Cox
model using cph (Design library).
Using the following I get the error:
> ddist2.abr <- datadist(data2.abr)
> options(datadist='ddist2.abr')
> cph1.abr <- cph(Surv(strt3.abr,loc3.abr)~cov.a.abr+cov.b.abr,
data=data2.a
Haiyong,
There may be better ways, but this what I'd do. (And I'm not an expert
on this.)
(a) surround the polygon with a rectangle,
(b) define, via an indicator function, a new function that is equal to
your desired function within the polygon, and zero outside it,
(c) use adapt() to integr
One concern that I have with the 'tapply' approach is that it does not
create the correct results if the data it not in sorted order. See the
example below:
> # generate an unsorted set of data
> set.seed(123)
> x <- data.frame(a=sample(1:3,12,TRUE), b=sample(0:1, 12, TRUE))
> x
a b
1 1 1
2
Marc Schwartz wrote:
> OK, here is one possible solution, though perhaps with a bit more time,
> there may be more optimal approaches.
>
> Using your example data above, but first noting that you do not want to
> use:
>
> df <- data.frame(cbind(subject,year,event.of.interest))
>
> Using cbind
jim holtman wrote:
> On 2/14/07, Tim Churches <[EMAIL PROTECTED]> wrote:
>> Any advice, tips, clues or pointers to resources on how best to speed up
>> or, better still, avoid the loops in the following example code much
>> appreciated. My actual dataset has several tens of thousands of rows and
>>
On Thu, 2007-02-15 at 12:24 +1100, Tim Churches wrote:
> Any advice, tips, clues or pointers to resources on how best to speed up
> or, better still, avoid the loops in the following example code much
> appreciated. My actual dataset has several tens of thousands of rows and
> lots of columns, and
On 2/14/07, Tim Churches <[EMAIL PROTECTED]> wrote:
>
> Any advice, tips, clues or pointers to resources on how best to speed up
> or, better still, avoid the loops in the following example code much
> appreciated. My actual dataset has several tens of thousands of rows and
> lots of columns, and t
Hi there,
I want to integrate a function over an irregular polygon. Is there
any function which can implement this easily? Otherwise, I am
thinking of divide the polygon into very small rectangles and use
"adapt" to approximate it. Do you have any suggestions to get the
fine division? Any
Any advice, tips, clues or pointers to resources on how best to speed up
or, better still, avoid the loops in the following example code much
appreciated. My actual dataset has several tens of thousands of rows and
lots of columns, and these loops take a rather long time to run.
Everything else whi
Hello dear Developers,
I have a problem in using glade with the statistical package R(through RGtk).
While the dialogs in russian encoding work pretty well, the R can't read from
these dialogs (getTabLabelText) in russian properly. I run WinXP.
TX.
_
Hi,
after standardizing my data by dividing each covariate by its mean, the hazard
ratio of variables ranges btw ~ 0.5 and 3.55. when i test the PH assumption by
cox.zph, rho ranges btw -0.4235863 and 0.359827. visualizing the PH
assumption by plot, the plot of scaled schoefeld residuals agai
Hi,
When I start R on my MacBook Pro (Mac OS X 10.4.8) I get this message:
2007-02-15 00:51:16.672 R[268] *** -[NSBundle load]: Error loading code
/Users/dalfes/Library/InputManagers/iPLM/iPLM.bundle/Contents/MacOS/iPLM
for bundle /Users/dalfes/Library/InputManagers/iPLM/iPLM.bundle, error cod
Try the following to see:
library(rpart)
iris.rp(Sepal.Length ~ Species, iris)
plot(iris.rp)
text(iris.rp)
Two possible solutions:
1. Use text(..., pretty=0). See ?text.rpart.
2. Use post(..., filename="").
Andy
From: Wensui Liu
>
> not sure how you want to label it.
> could you be more spe
> levels(training$aa_one)
[1] "A" "C" "D" "E" "F" "H" "I" "K" "L" "M" "N" "P" "Q" "R" "S" "T" "V"
"W" "Y"
this is 19 levels of aa_one.
When I see tree,
in one node, it is labeled by
aa_one=bcdfgknop
it is obvious that it is labeled by alphabet letter ,not by levels of aa_one.
I want to get
Roberto:
You need to do what ?xyplot says. as.symbol(groups) is not a variable and is
certainly not subsettable. If you have a variable named "groups" in your
data.frame , then ... groups = groups gives the grouping according to the
levels of that variable. If you do not, then it may be picking up
not sure how you want to label it.
could you be more specific?
thanks.
On 2/14/07, Aimin Yan <[EMAIL PROTECTED]> wrote:
> I generate a tree use rpart.
> In the node of tree, split is based on the some factor.
> I want to label these node based on the levels of this factor.
>
> Does anyone know how
I generate a tree use rpart.
In the node of tree, split is based on the some factor.
I want to label these node based on the levels of this factor.
Does anyone know how to do this?
Thanks,
Aimin
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R-help@stat.math.ethz.ch mailing list
https://stat.et
On Wed, 2007-02-14 at 13:54 -0700, sj wrote:
> hello,
>
> I am trying to use predict.lm to make point forecasts based on a model with
> continuous and categorical independent variables
> I have no problems fitting the model using lm, but when I try to use predict
> to make point predictions. it re
Hello R list,
I have a little problem with splom. I'd like to wrap it in a
function, for example:
multi.scatterplot <- function(data,groups,cols,colors) {
splom(~data[,cols], groups = as.symbol(groups), data = data, panel
= panel.superpose, col=colors)
}
and then call it like in
multi.scat
On Tue, 2007-02-13 at 14:45 +0100, Christoph Scherber wrote:
> Dear R users,
>
> I have now tried out several options of obtaining p-values for
> (quasi)poisson lmer models, including Markov-chain Monte Carlo sampling
> and single-term deletions with subsequent chi-square tests (although I
> am
hello,
I am trying to use predict.lm to make point forecasts based on a model with
continuous and categorical independent variables
I have no problems fitting the model using lm, but when I try to use predict
to make point predictions. it reverts back to the original dataframe and
gives me the poi
Professor Filzmoser.
Thank you so much for the detailed response. It is very helpful.
-- TMK --
212-460-5430home
917-656-5351cell
>From: Peter Filzmoser <[EMAIL PROTECTED]>
>To: Talbot Katz <[EMAIL PROTECTED]>
>CC: r-help@stat.math.ethz.ch
>Subject: Re: Questions about results from P
On 2/14/2007 3:12 PM, Tyler Smith wrote:
> On Wed, Feb 14, 2007 at 02:40:47PM -0500, Duncan Murdoch wrote:
>> On 2/14/2007 1:32 PM, Tyler Smith wrote:
>> >Hi,
>> >
>> >I'd like to make the text in my legends italic,
>
> ...
>
>> >How can I do this?
>>
>> This should work:
>>
>> plot(1,1)
>> sa
On Wed, Feb 14, 2007 at 02:40:47PM -0500, Duncan Murdoch wrote:
> On 2/14/2007 1:32 PM, Tyler Smith wrote:
> >Hi,
> >
> >I'd like to make the text in my legends italic,
...
> >How can I do this?
>
> This should work:
>
> plot(1,1)
> savefont <- par(font=3)
> legend("topright", legend=c('Label
Hi,
PCAproj is mainly designed for robust PCA and not for classical PCA.
Therefore, when applying classical estimators to the results of a
robust PCA, like the mean to the robust PCA scores, this will usually
not give zeros. The robust PCs have been centred robustly, and
not classically by the mea
On 2/14/2007 1:32 PM, Tyler Smith wrote:
> Hi,
>
> I'd like to make the text in my legends italic, but I can't figure out
> how to do so. font=3 doesn't work. Googling brings up the possibility
> of expression(italic()), which produces italics, but I can't get this
> to work with my label data, wh
Hi,
I'd like to make the text in my legends italic, but I can't figure out
how to do so. font=3 doesn't work. Googling brings up the possibility
of expression(italic()), which produces italics, but I can't get this
to work with my label data, which is a vector of strings:
legend(locator(1), leg
I use "key=" instead. Much more flexible. I set the parameters in
"trellis.par.set" for the plot and then take these settings in "key" to get
them in the legend. "space=" is part of the "key=" settings.
As in this (to stick with your example):
library(lattice)
lg <- c("alfa","beta","gamma")
a <-
I am a beginner and I don't know how to use Rpad package.
I installed it and opened the following example .Rpad page in Internet
Explorer.
When I clicked "Calculate" button, nothing seems to happen. Can anyone tell
me how to use Rpad?
Rpad Example
Here is a basic R i
Hello, folks! I hope you can help a newbie out. I need to install the
parallel-R functionality for a software package I am trying to download. I
have been going through the steps in the install readme but I cannot find the
necessary "Bmake.inc" file to allow the file to compile properly. I k
Thank you very much for your reply.
How is it possibe to approximate the max number of variables that should be
used considering the number of samples and censored data? Experimentally, I saw
that for my specific data, I have to reduce down to 120 variables. So I
wondered how it could be approx
Hi Phil,
Are you using metaMDS in the vegan package? This allows you to determine
the number of random starts, and selects the best. It might help.
Hank Stevens
> Dear Phil,
>
> I don't have experiences with Minissa but I know that isoMDS is bad in
> some situations. I have even seen situations wit
On 2/14/2007 11:35 AM, Johannes Graumann wrote:
> Hello,
>
> Is there an elegant way to implement something like the elif function (e.g.
> python) and prevent multiple if-else contruct concatenation when coding in
> R?
Why not just concatenate, using "else if"? For example,
if (condition1) {
Hi,
I'm an italian R (and data mining) beginner.
I installed R, Rattle and rggobi with no trouble.
But I'm not able to do clustering (both kmean and hierarchical).
When I press F5 in Rattle Cluster tab nothing happens (and no log rows in
the Log Tab).
On the R console I get the following error
Dear Federico
Check the legend function.
?legend
HTH.
Manuel
--- Federico Abascal <[EMAIL PROTECTED]> escribió:
> Dear members of the list,
>
> it is likely a stupid question but I cannot find the
> information neither
> in R manuals nor in google.
>
> I am generating a plot (from hclust res
There is a function in the fCalendar package called xts.dvs but I m
unable to see the code inside the function.
Is this common with functions in the fCalendar package or maybe there is
something else that I have to
do first or use the colon colon command in some manner I want to see
the function c
In general, most methods for R's generic "plot" command (try:
getAnywhere("plot.hclust")) in R's base graphics system accept further
arguments in the (...) portion that provide these sorts of capabilities.
?par will tell you about these further graphical parameters.
Bert Gunter
Genentech Nonclin
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Hello,
Is there an elegant way to implement something like the elif function (e.g.
python) and prevent multiple if-else contruct concatenation when coding in
R?
Sorry for my newbieishness,
Joh
__
R-help@stat.math.ethz.ch mailing list
https://stat.ethz
>I have a number (correlation coefficient) "x" in [-1,1], and a color
>palette col<-grey(1:N/N) for a given N. I want to assign a color from "col"
>to "x" which corresponds to "x" in levels of cut(-1:1,N).
>
>So for N<-4 and x<-0.3, the color should be col[3]. For N<-4 and x<--0.8,
>the color shoul
Dear members of the list,
it is likely a stupid question but I cannot find the information neither
in R manuals nor in google.
I am generating a plot (from hclust results) but I cannot see properly
the labels because the default font size is too large. How can I change it?
Thanks!
Federico
Hi Folks,
Here is my attempt at a simple polar plot.
> pos <- seq(0,360,by=5)
> tspk <- rep(c(1,0,1),c(13,47,13))
> require(plotrix)
> polar.plot(tspk,pos,rp.type="s",point.symbols=17,point.col="green4")
I only see half the symbols, the other half of each symbol is hidden
under the circu
Hi,
I have few high-level questions about the Snow and Rmpi packages . I understand
that Snow uses Rmpi as one of possible transport layers, yet my questions about
user experience, not technical details:
1. Does Snow install and work well in Windows?
2. Interruptibility. I understand that cu
I have been using Hapassoc a R module for analyzing haplotypes in genetics. It
uses a GLM approach. One of the things it does is to infer haplotypes in people
with uncertain genotype phases, the estimation of ORs is based on this inferred
haplotype frequencies. I want to report the number of obs
Hi,
I have a number (correlation coefficient) "x" in [-1,1], and a color
palette col<-grey(1:N/N) for a given N. I want to assign a color from "col"
to "x" which corresponds to "x" in levels of cut(-1:1,N).
So for N<-4 and x<-0.3, the color should be col[3]. For N<-4 and x<--0.8,
the color shou
I am defining the legend using trellis.par.set (not sure if
correctly), and space does not seem to do the trick. auto-key (here
commented) places it to the top...
a = rep(c("alfa","beta","gamma","alfa","beta","gamma"),100)
b = rnorm(600)
input=data.frame(a,b)
densityplot(~(input$b),
groups=input
Edwin Commandeur wrote:
> Dear all,
>
> I am comparing logistic regression models to evaluate if one predictor
> explains additional variance that is not yet explained by another predictor.
> As far as I understand Baron and Li describe how to do this, but my question
> is now: how do I report thi
On 2/13/07, shirley zhang <[EMAIL PROTECTED]> wrote:
> I'm working with a nested model (mixed).
>
> I have four factors: Patients, Tissue, sex, and tissue_stage.
>
> Totally I have 10 patients, for each patient, there are 2 tissues
> (Cancer vs. Normal).
>
> I think Tissue and sex are fixed. Patien
>From the documentation for xyplot (referred to from densityplot):
The position of the key can be controlled in either of two possible
ways. If a component called space is present, the key is positioned
outside the plot region, in one of the four sides, determined by the
value of space, which can
Please see
Michael Frigge and David C. Hoaglin and Boris Iglewicz. "Some Implementations
of the Boxplot". The
American Statistician. Vol. 43 (1), February 1989. 50–54.
They investigate and compared several alternate definitions of the hinges
(quartiles)
and conclude that Tukey's definition is
How can I place the legend to the left or right of the densityplot? By
default, it goes at the top, and as it is a rather long list, the
density plot only uses half the space of the whole graphic...
On 11/30/06, Gabor Grothendieck <[EMAIL PROTECTED]> wrote:
> Me too on Windows XP.
>
> Its probably
A new version of Rattle (2.1.123), a Gnome-base GUI for data mining,
written completely in R, and available on GNU/Linux, Unix, Mac OSX, and
MS/Windows, has been released to CRAN.
There has been quite a lot of activity since the last update, including:
Transform:
Now include basic imputat
A new package is now available on CRAN - pmml.
PMML is the Predictive Modelling Markup Language, and is accepted by a
number of large database and data warehouse systems (IBM DB2 and NCR
Teradata) for deployment of models as SQL.
The current package is an "early release" in that it is very basic
vcov can simplify it slightly:
se <- sqrt( t(a) %*% vcov(m) %*% a )
( a %*% beta ) / se
On 2/14/07, Abhijit Dasgupta <[EMAIL PROTECTED]> wrote:
> look at the function "estimable" in the package gmodels. This does the
> t.stat that you mention below.
>
> Otherwise, if you wanted to do this by han
Hi
Google "boxplot"
see Wikipedia
The boxplot was invented in 1977 by American statistician John Tukey.
John W. Tukey. "Exploratory Data Analysis". Addison-Wesley, Reading,
MA. 1977
So you shall probably look there.
HTH
Petr
On 14 Feb 2007 at 16:35, Vikas Rawal wrote:
Date sent:
>
> > I am not sure why you would want to do this, and a 'box and whiskers plot'
> > was pretty closely defined by the original authors so R does not allow
> > options for forms they did not consider.
>
> I was wondering who the original authors were? Would be interested in
> looking up thei
> I am not sure why you would want to do this, and a 'box and whiskers plot'
> was pretty closely defined by the original authors so R does not allow
> options for forms they did not consider.
I was wondering who the original authors were? Would be interested in
looking up their description.
?aggregate
?by
ir. Thierry Onkelinx
Instituut voor natuur- en bosonderzoek / Reseach Institute for Nature
and Forest
Cel biometrie, methodologie en kwaliteitszorg / Section biometrics,
methodology and quality assuranc
Yes,
df is your data.frame.
tapply(df$y, df$x, sum)
On 14/02/07, d. sarthi maheshwari <[EMAIL PROTECTED]> wrote:
>
> Hi
>
> Sorry if this is a wrong post in the forum. Please suggest if this is a
> correct forum to discuss R related basic problem.
>
> I wanted to perform the following task by u
Hi
Sorry if this is a wrong post in the forum. Please suggest if this is a
correct forum to discuss R related basic problem.
I wanted to perform the following task by using R:
e.g.
input data.frame
x y
a10
b20
a10
a
Hello Thierry
Sorry for my assumption about automatically updating R itself.
Your question is a reasonable one. I have to update the modules
regularly because the users urge me to do so. Updating R itself
means more work, specially if you have to recompile all modules!
Of course you can just mo
Hi, R Lovers!
I have some survey data. I'd like to run R or R packages for
processing data inputted
from AHP(Analytic Hierarchy Process) survey.
Are there any R packages or subsititues for running data from AHP survey.
Thanks in advance,
--
Kum-Hoe Hwang, Ph.D.Phone : 82-31-250-3516Email : [EM
Hi Gabor, Eric,
Your suggestions are certainly more elegant (and involve less typing) than
my for-loop. Thanks!
Patrick, I see what you mean regarding dates. The problem is that I'm doing
all sorts of manipulations on the original data, which work best on numeric
matrices, and the dates just
On Wed, 14 Feb 2007, Prof Brian Ripley wrote:
>> I've got what I'd expect to be a pretty simple issue: I fit an aov object
>> using multiple error strata, and would like some significance tests for the
>> contrasts I specified.
>
> It _is_ covered on the relevant help page. See the 'split' argum
Dear all,
I am comparing logistic regression models to evaluate if one predictor
explains additional variance that is not yet explained by another predictor.
As far as I understand Baron and Li describe how to do this, but my question
is now: how do I report this in an article? Can anyone recommen
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