On Thu, 2006-11-09 at 17:50 +, Kris Lockyear wrote:
Dear All,
I have a dissimilarity matrix which I happily convert to a distance object
by running:
X - as.dist(Y)
and I can happily now run either hclust(X) or agnes(X).
So that the various bits of output are labelled correctly I
Also new values can be easy calculated from prcomp object:
Data - scale(iris[,1:4],center=TRUE,scale=TRUE)
iris.pc - prcomp(Data)
# Explained variation
(iris.pc$sdev^2/sum(iris.pc$sdev^2))*100
# Loadings
iric.pc$rotation
#Scores
iris.pc$x
#Fitted Values for each PC
# Xfit = T*P^t
PCfit -
Dear All,
I tried to use the boot function, provided in the boot package, in such a
simple task as to create a bootstrap distribution of the mean of a vector x.
I wrote:
b - boot(x, mean, R=200)
Well, it doesn't work. I suspect it has something to do with what is called
second argument of the
Joaquim,
you have to write your own function that takes the data and the index,
which is passed to it by boot().
try this ...
x2 - c(2, 3, 4, 5, 6, 5, 4, 5, 6, 5, 4, 5, 6, 5, 7, 2, 3, 4, 3,
4, 3, 5, 6, 7, 5)
mean.boot - function(x, i) mean(x[i])
b1 -boot(x2, mean.boot, 999)
b1
I guess I'll chip in, since I wrote that function (which is going to be
updated thoroughly in the near future -- I will probably expand it to an
entire package).
Have a look at MiMa at Wolfgang Viechtbauer's page. Is that what
you are looking for?
http://www.wvbauer.com/downloads.html
On 11/10/2006 1:46 AM, [EMAIL PROTECTED] wrote:
The simplest way to do this is to put
options(prompt = R )
in your .Rprofile file. If you don't have an .Rprofile file,
then persuading Windows to let you call a file by that name can
be frustrating.
The easiest way is probably to use
Charilaos Skiadas wrote:
As a addendum to all this, this is one of the responses I got from
one of my colleagues:
The problem with R is that our students in many social science
fields, are expected to know SPSS when they go to graduate school.
Not having a background in SPSS would
Carmen,
Gabor has already given you the detail you ask for, but might try the
following plot to see what is going wrong:
plot(times(tt), x, type='l')
This does not give you the EXACT control of the axis you asked for,
but this simple plot command gives you a fairly nice result. It
Dear all,
I was wondering if it's possible to simplify graphs created with Sweave.
I'm using in a document several plots with each about 4000 points
(qqnorm(rnorm(4000))). It looks likes the information of each points is
maintained in the graph. As a result of that the pdf filesize get's
quite
Our first-year graduate statistics course (in psychology) is
taught by Prof. Paul Rosenbaum, in the statistics department.
Last year (according to my students), he discouraged students
from using R for their homework. He told them it was too hard.
Now he is again teaching the course, recommending
Hi
I know this is a basic question and I know I have done it before but I
can't find the answer any more.
I have a data set, say:
F1, F2, Value
F1 and F2 are Factors.
I would like to plot
plot(TheCombinationOf(F1, F2), Value)
I remember there was a function for TheCombinationOf() but I
Hi all,
I'm trying to write an axis label
that sounds P( X | K and Xb ) (probability of X given K and Xb )
but I need the intersection symbol
(the \cap in latex)
Actually I did'nt find any cap symbol
in plotmath, the only one is
intersect(A[i],i==1,n)
but is not my case because subscripts
Hi.
One guy of my team (Thibaut Jombart) wrote a driver to sweave in png
(see http://tolstoy.newcastle.edu.au/R/devel/06/03/4599.html). The
driver works very nice and is very useful for plots with many points,
raster images... I thought that Friedrich Leisch would include it in the
Sweave
Peter Dalgaard wrote:
Rainer M Krug [EMAIL PROTECTED] writes:
Hi
I know this is a basic question and I know I have done it before but I
can't find the answer any more.
I have a data set, say:
F1, F2, Value
F1 and F2 are Factors.
I would like to plot
plot(TheCombinationOf(F1, F2),
Rainer M Krug [EMAIL PROTECTED] writes:
Hi
I know this is a basic question and I know I have done it before but I
can't find the answer any more.
I have a data set, say:
F1, F2, Value
F1 and F2 are Factors.
I would like to plot
plot(TheCombinationOf(F1, F2), Value)
I
More impressions --
-Original Message-
From: [EMAIL PROTECTED]
[mailto:[EMAIL PROTECTED] On Behalf Of
Charilaos Skiadas
Sent: Thursday, November 09, 2006 11:45 PM
To: r-help@stat.math.ethz.ch
Subject: Re: [R] Making a case for using R in Academia
John (and everyone else),
It's quite intentional, as it is the documented behaviour of data.frame:
Objects passed to 'data.frame' should have the same number of
rows, but atomic vectors, factors and character vectors protected
by 'I' will be recycled a whole number of times if necessary.
data.frame(a =
Hello. I am trying to fit a nonlinear mixed model involving 3 parameters.
I have successfully made a self-starting function. getInitial() correctly
outputs the initial estimates. I can also use the nlsList with this
function to get the separate nonlinear fits by group. However, I get an
error
The concrete problem is that I am refereeing
a paper where a confidence interval is
presented for the risk ratio and I do not find
it credible. I show below my attempts to
do this in R. The example is slightly changed
from the authors'.
I can obtain a confidence interval for
the odds ratio from
No, I am not familiar with that project, actually never heard it before your
reply.:)
Anyway, I found some code later on from Claudio Agostinelli who developed
this code for his teaching, I think. Unfortornuitly, his code does not work
on my settings. And I do not want to send much time on the
The package sciplot is now available for download from CRAN. This
package includes a collection of functions that create graphs with error
bars for data collected from one-way or higher factorial designs, as
well as a function to plot bifurcation diagrams resulting from analysis
with XPPAUTO. The
Hi to all ... the same code, but another question.
I changed only the type='n' to type='l' and debugged the function xy.coords.
with type = 'l' :
there are the correct values of x and y inside the function xy.coords
but the y value is filled with NA seems that the length is matching now
because
Hello,
currently I am using code, which basically works like this:
|
| for (i in 1:20) {
| for (j in 1:30) {
| df[i, j, 20] - df[i,j,27] + df[i,j,30]
| }
| }
df is: `data.frame: 360 obs. of 30 variables'
Do you have any ideas whether I could get this code any faster?
Regards,
Sven
On 10 November 2006 at 16:19, sun wrote:
| No, I am not familiar with that project, actually never heard it before your
| reply.:)
|
| Anyway, I found some code later on from Claudio Agostinelli who developed
| this code for his teaching, I think. Unfortornuitly, his code does not work
| on
Vittorio,
Those files being missing is what's causing the errors. Try recopying them
to your server home location.
Those files should be under Rpad/basehtml/gui/* in your R library
installation. If not, try reinstalling or extract the necessary files right
out of the Rpad_1.1.1.tar.gz file.
-
You should look at
?plot.default
?times
You need to supply an x vector (time) along with a y value vector of the
same length. Your error message tells you that you vectors were not of equal
length. You are repeatedly supplying different length vectors. times()
takes a text vector and
Davide,
It looks to be an issue in the /etc/X11/xorg.conf file of Edgy. The paths to
the X11 fonts are wrong, you've got to change them to the right one. I'm not
in my Ubuntu box, but I think the part of the Font paths should have been
/usr/share/fonts/X11 and it was /usr/share/X11/fonts in the
Carmen Meier said the following on 11/10/2006 9:46 AM:
Hi to all ... the same code, but another question.
I changed only the type='n' to type='l' and debugged the function xy.coords.
with type = 'l' :
there are the correct values of x and y inside the function xy.coords
but the y value is
Change those occurrences in the config file, reboot and that should fix it.
Why reboot? Rebuilding the font-cache and restart X is *largely* enough!
Marco
__
R-help@stat.math.ethz.ch mailing list
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do
On Fri, 10 Nov 2006, Jim Lemon wrote:
Charilaos Skiadas wrote:
Not having a background in SPSS would put these students at a
disadvantage.
Is this really the case? Does anyone have any such statistics?
Unfortunately not statistics, but my experience in nearly every
(psychology) research
That is, of course, an option. I didn't know his level of familiarity with
those things so I answered his question simply.
Regards,
Mon
On 11/10/06, Scionforbai [EMAIL PROTECTED] wrote:
Change those occurrences in the config file, reboot and that should fix
it.
Why reboot? Rebuilding the
On Fri, 10 Nov 2006, ONKELINX, Thierry wrote:
Dear all,
I was wondering if it's possible to simplify graphs created with Sweave.
I'm using in a document several plots with each about 4000 points
(qqnorm(rnorm(4000))). It looks likes the information of each points is
maintained in the
Prof Brian Ripley wrote:
It's quite intentional, as it is the documented behaviour of data.frame:
Objects passed to 'data.frame' should have the same number of
rows, but atomic vectors, factors and character vectors protected
by 'I' will be recycled a whole number of times if
Tom,
I've just downloaded Rpad_1.1.1.tar.gz file from CRAN and I can assure you
that those files are ** ALL** missing in it .
Ciao
Vittorio
Alle 16:35, venerdì 10 novembre 2006, tshort ha scritto:
Vittorio,
Those files being missing is what's causing the errors. Try recopying them
to your
On Wed, Nov 08, 2006 at 09:24:38PM -0500, Charilaos Skiadas wrote:
Hi Charilaos,
I would particularly like to hear from people who were not hard-core
programmers before taking up R, so perhaps had originally some
difficulties with it. How hard was it, and how quickly did it start
As a student, I'll throw my two cents into this discussion. To
preface my opinion, I am in a Joint Ph.D. program in Quantitative
Psychology and Computer Science; I have a significant programming
background and use R (or custom-built software that relies on R in
some way) for the majority
I am just joining this thread. Regarding a tendency of journals to lock out
the use of particular packages, there are rumours that SAS proc mixed has to be
used for particular things. I wonder if whether R might displace SAS or proc
mixed in such a role could depend on wether there the QA
Admittedly I am using an old version 1.7.1, but can anyone tell if this
is or was a problem. I can only get nlm (nonlinear minimization) to
adjust the first three components of function variable. No gradient or
hessian is supplied. E.G.;
fnoise
function(y) { y[5]/(y[4]*sp2) *
Wolfgang Vietchbauer wrote :
The dependent variable to be used with the mima function can be any
measure for which we have a known sampling variance (or approximately
so) and that is (approximately) normally distributed. So, the
dependent variable could be log odds ratios, log risk ratios,
On 11/10/06, Albrecht, Dr. Stefan (AZ Private Equity Partner)
[EMAIL PROTECTED] wrote:
Dear all,
I am encountering a problem with lattice in the current version 0.14-13
with R version 2.4.0 on a Windows XP system.
For example,
histogram(~voice.part, singer)
is not labeling the x labels
Hi,
my history in Mac for R does not work. I found the solution is GNU
readline and re-installation from source. is there any other way to
solve this? i really do not want to re-install: which means I need to
install many packages, blabla...
i used to use JGR (which solved that problem) but
Hi all,
Here's an interesting (for me, at least!) problem I came across:
I have a correlation matrix, let's say with 6 variables, A to F, as column
headings and the same 6 as row headings.
The matrix is filled with correlation coefficients. Therefore, the diagonal
is all 1's, and each of the two
Dear R community,
The Department of Statistics, Umeå University, Sweden, is searching
for a Professor of Statistics (deadline December 7, 2006). We would
appreciate applications from people on this list! More information is
available at http://www.stat.umu.se/index_eng.shtml
Welcome with your
A=matrix(1:9,3)
A[lower.tri(A)]
b
On Nov 10, 2006, at 4:50 PM, Davendra Sohal wrote:
Hi all,
Here's an interesting (for me, at least!) problem I came across:
I have a correlation matrix, let's say with 6 variables, A to F, as
column
headings and the same 6 as row headings.
The matrix is
try this:
cor.mat - cor(iris[1:4])
cor.mat[lower.tri(cor.mat)]
I hope it helps.
Best,
Dimitris
Dimitris Rizopoulos
Ph.D. Student
Biostatistical Centre
School of Public Health
Catholic University of Leuven
Address: Kapucijnenvoer 35, Leuven, Belgium
Tel: +32/(0)16/336899
Fax:
Look at the functions tril() and triu() in the Matrix package
Regards
Francisco
Davendra Sohal wrote:
Hi all,
Here's an interesting (for me, at least!) problem I came across:
I have a correlation matrix, let's say with 6 variables, A to F, as column
headings and the same 6 as row headings.
Dear R-Pros,
I have count data in which 6-10 points are nested within 17 larger units
(which are nested within 3 larger-still units) plus a number of
covariates. It could be nested ANCOVA but for poisson family. Could
someone kindly advise me 1) if lmer is the correct function for the
analysis?
Hi Deborah,
A very good source for hands-on information on mixed models in S is:
Mixed-effects models in S and S-PLUS by Pinheiro and Bates
Incidentally, it's available in your university's library
http://toroprod.library.utoronto.ca/uhtbin/cgisirsi/2XfWcMI0Ns/ROBARTS/140640080/2/1000
I
Try this:
plot(0, main = quote(P(X ~ | ~ A ~ intersect(B
On 11/10/06, stortignauz [EMAIL PROTECTED] wrote:
Hi all,
I'm trying to write an axis label
that sounds P( X | K and Xb ) (probability of X given K and Xb )
but I need the intersection symbol
(the \cap in latex)
Actually I
I'm trying to classify some observations using lda and I'm getting a
strange error. I loaded the MASS package and created a model like so:
train - mod1[mod1$rand 1.7,]
classify - mod1[mod1$rand = 1.7,]
lda_res - lda(over_win ~ t1_scrd_a + t1_alwd_a, data=train, CV=TRUE)
That works, and all is
i think you should use
lda_res - lda(over_win ~ t1_scrd_a + t1_alwd_a, data=train, CV=F)
loo should be disabled for predicting purpose.
On 11/10/06, Larry White [EMAIL PROTECTED] wrote:
I'm trying to classify some observations using lda and I'm getting a
strange error. I loaded the MASS
I don't see how this code can work at all. '[-.data.frame' does not
accept three arguments, e.g.
women[1,2,3] - 17
Error in `[-.data.frame`(`*tmp*`, 1, 2, 3, value = 17) :
unused argument(s) (3)
If df is in fact a three-dimensional array you can do
df[1:20, 1:30, 20] - df[1:20, 1:30,
On Fri, 10 Nov 2006, Frank E Harrell Jr wrote:
Prof Brian Ripley wrote:
It's quite intentional, as it is the documented behaviour of data.frame:
Objects passed to 'data.frame' should have the same number of
rows, but atomic vectors, factors and character vectors protected
by
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