Hallo,
is there any extension of the pairwise Wilcoxon test to a dependent
samples layout with replicates (or, in other terms, a one-way layout
with blocking and replicates)?
The Wilcoxon method with matched pairs works for the case of dependent
samples with one observation per block, while the
Dear all ReadeRs
I was finding a quick method to improve test readability adding or constructing
(with your help) one or more function that allow what follow.
Please consider
Trt-c(1,1,1,1,2,2,2,2,3,3,3,3,4,4,4,4,5,5,5,5)
Block-c(1,2,3,4,1,2,3,4,1,2,3,4,1,2,3,4,1,2,3,4)
Peter Dalgaard wrote:
d) Use bitmap(). It requires a working Ghostscript install, but is
otherwise much more convenient. Newer versions of Ghostscript have
some quite decent antialiasing built into some of the png devices.
Currently you need a small hack to pass the extra options to
Ghostscript --
Hey folks,
I have an environmental dataset on which I conducted a PCA (prcomp) and I
need the scores of this PCA for each site (=each row) to conduct further
analyses.
Can you please help me with that?
Thanks a lot
Jérôme Lemaître
__
Hi R-Help!
My question: I have lifetime/failure data of machines with different
stress levels and i think an weibull/extreme value distribution would
fit this data. So I did:
model1 - survreg(Surv(lfailure)~stress,data=steel,dist=extreme)
(where lfailure=log(failure))
Now I would like to
I am using the scan command to read a file I called data1. The program returns
Error in file(file,r) : unable to open connection In addition:
Warning message: cannot open file 'data1'
I already checked to see if the starting directory in R was correct and it is.
Dear R users,
Is there a way to compare glmmPQL models differing in their fixed-effects
structure (similar to the ANOVA approach in lme) ?
Thank you very much for your help!
Chris.
This mail was sent through
Hi R-Help!
My question: I have lifetime/failure data of machines with different
stress levels and i think an weibull/extreme value distribution would
fit this data. So I did:
model1 - survreg(Surv(lfailure)~stress,data=steel,dist=extreme)
(where lfailure=log(failure))
Now I would like to
We've been running servers with AMD Opterons (both duals and 4-ways) using SuSE
SLES 8 and Fedora Core 2 and 3 (64 bit). All work well and R can access up to
~15GB of RAM on our 4-way machine (which has 16GB installed). One of the Red
Hat Enterprise Linux versions comes with a buggy compiler but
Dear Lister,
I work with R 2.0.1 and Windows XP, and meet a strange trouble trying to
make a R package with a make-package.bat file John Fox has kindly provided
(see detailed script below). I am working with it since some months with
excellent results (I do'nt use compiled C code so far). Just
Hi R-Help!
My question: I have lifetime/failure data of machines with different
stress levels and i think an weibull/extreme value distribution would
fit this data. So I did:
model1 - survreg(Surv(lfailure)~stress,data=steel,dist=extreme)
(where lfailure=log(failure))
Now I would
hello,
if i need to read data from a file one line and one how can do?
I am using lines - (input.txt)
so that now the variable lines holds all the data in my file and i am using for
loop to loop each
lines[i] to get each line.
for exmaple, right now my lines[i] = 1 2 3 44 54 23 24
I am wonder
I can't get identify to work, using R 2.0.1 under windows xp pro,
service pack 2. Here's what I enter, and the result:
plot((our.frame2$c1),(our.frame2$c9)) # Produces desired plot
identify(our.frame2$c1) # Plot comes to forefront, so I select a point
warning: no point with 0.25 inches
Hi all,
I recently (today) updated the Matrix package and installed the latticeExtra
package, but then when I tried to load the lme4 package, I got the following
error message:-
library(lme4)
Loading required package: Matrix
Loading required package: latticeExtra
Error in
On Sat, 2005-01-22 at 17:31 -0500, Jérôme Lemaître wrote:
Hey folks,
I have an environmental dataset on which I conducted a PCA (prcomp) and I
need the scores of this PCA for each site (=each row) to conduct further
analyses.
Can you please help me with that?
Did you try help(prcomp) ?
Hi Olivia
On 22 Jan 2005 at 20:55, Olivia Fant wrote:
I am using the scan command to read a file I called data1. The
program returns
Error in file(file,r) : unable to open connection In
addition: Warning message: cannot open file 'data1'
I am not exactly
Does anyone know of another version of the Mcnemar test that provides:
1. Odds Ratios
2. 95% Confidence intervals of the Odds Ratios
3. Sample probability
4. 95% Confidence intervals of the sample probability
Obviously the Odds Ratios and Sample probabilities are easy to calculate
__
R-help@stat.math.ethz.ch mailing list
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
__
R-help@stat.math.ethz.ch mailing list
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Does this work for you?
x - runif(30)
y - runif(30)
z - 1:30
plot(x,y)
identify(x,y,z)
That is you need to tell it everything it is looking for. Sometimes x is
boy x and y because they use xy.coords
Tom
David Parkhurst wrote:
I can't get identify to work, using R 2.0.1 under windows xp pro,
David Parkhurst wrote:
I can't get identify to work, using R 2.0.1 under windows xp pro,
service pack 2. Here's what I enter, and the result:
plot((our.frame2$c1),(our.frame2$c9)) # Produces desired plot
identify(our.frame2$c1) # Plot comes to forefront, so I select a point
warning: no
[EMAIL PROTECTED] wrote:
Hi all,
I recently (today) updated the Matrix package and installed the latticeExtra
package, but then when I tried to load the lme4 package, I got the following
error message:-
library(lme4)
Loading required package: Matrix
Loading required package: latticeExtra
Error
Hallo Marco
Marco Chiarandini writes:
Hallo,
is there any extension of the pairwise Wilcoxon test to a dependent
samples layout with replicates (or, in other terms, a one-way layout
with blocking and replicates)?
There is always the possibility to summarize the replicates and
then
hi - thanks for the response,
I've changed to using the ODBC driver and MySQL as i didn't want to be tied to
using linux, and it seems there is no easily installable version of the
postgres driver for windows.
cheers,
colin
-Original Message-
From: Sean Davis [mailto:[EMAIL PROTECTED]
Hallo Christoph,
There is always the possibility to summarize the replicates and
then calculate a common pairwise Wilcoxon test.
mmmh, in this case I prefer the Friedman test, I would like not to loose
any data.
The Friedman test calculates the ranks inside of the blocks, for
each block
On Sun, 23 Jan 2005 18:35:00 -0500, David Parkhurst
[EMAIL PROTECTED] wrote :
I can't get identify to work, using R 2.0.1 under windows xp pro,
service pack 2. Here's what I enter, and the result:
plot((our.frame2$c1),(our.frame2$c9)) # Produces desired plot
identify(our.frame2$c1) # Plot
Bliese, Paul D LTC USAMH [EMAIL PROTECTED] writes:
Does anyone know of another version of the Mcnemar test that provides:
1. Odds Ratios
2. 95% Confidence intervals of the Odds Ratios
3. Sample probability
4. 95% Confidence intervals of the sample probability
On Sun, Jan 23, 2005 at 03:10:18PM -0500, [EMAIL PROTECTED] wrote:
Hi R-Help!
My question: I have lifetime/failure data of machines with different
stress levels and i think an weibull/extreme value distribution would
fit this data. So I did:
model1 -
Hi,
I have a question about limma.
I have data from spotted arrays.
I have class A and Class B on the same slide. In Limma if I put class
A as the reference (ref), are the list of genes I get in the output for class A
or
class B?
#design - modelMatrix(targets, ref=classA)
design
Josephine
On Mon, 24 Jan 2005, Jari Oksanen wrote:
On Sat, 2005-01-22 at 17:31 -0500, Jérôme Lemaître wrote:
Hey folks,
I have an environmental dataset on which I conducted a PCA (prcomp) and I
need the scores of this PCA for each site (=each row) to conduct further
analyses.
Can you please help me with
Does anyone have an automated way to make Current Index to Statistics
inquiries from R, or from the Unix command line? I thought it might be
convenient to have something like this for occasions in which I'm in a
foreign domain and would like to make inquires on my office machine
without firing up
Dear R users,
I am currently analyzing a dataset using lme(). The model I use has the
following structure:
model-lme(response~Covariate+TreatmentA+TreatmentB,random=~1|Block/Plot,method=ML)
When I plot the residuals against the fitted values, I see a clear
positive trend (meaning that the
Hi
I have 10 variables and 2 groups. I know how to plot a bwplot for ONE
var. e.g.
var.a var.b var.c .. GROUP
0.2 0.5 0.2 .. 0
0.3 0.2 0.2 .. 0
..
0.1 0.8 0.7 .. 1
0.5 0.5 0.1 .. 1
..
bwplot(var.a ~ GROUP, data = my.data)
How can I plot 10 bwplots (or boxplots)
Not sure if this will help, but have you tried loading the package after
install with no lazyload? I've found that if there are syntax errors in
the R source, that can give the problem you described. Just a guess.
Andy
From: Patrick Giraudoux H
Dear Lister,
I work with R 2.0.1 and
RE: [R] functions not found after installing DBI/RDBI packagesColin,
There is an ODBC driver for postgres and there is a binary installer for
postgres, just in case you want to use postgres. I think both are available at
http://www.postgresql.org. If all you are doing is storing and
TomH == Thomas Schönhoff [EMAIL PROTECTED]
on Fri, 21 Jan 2005 23:21:30 +0100 writes:
TomH Hello,
TomH Am Freitag, den 21.01.2005, 06:39 -0500 schrieb Sean Davis:
Consider using ESS and xemacs or emacs. You get syntax highlighting,
auto-indent, command auto-complete,
Your variables (var.*) seem to be on the same scale. How about
reshaping the data into a univariate layout and then using bwplot as
follows:
mydata - data.frame(ID = 1:20, A = runif(20), B = runif(20),
C = runif(20), GROUP = rep(c(0,1), c(10,10)))
mydata.uni -
Dear R users,
I am using function bandplot from the gplots package.
To my understanding (viewing the source of bandplot) it calls
function plot (add = FALSE) with the same parameters (except for a few
removed).
I would like to give extra parameters 'xlab' and 'ylab' to function
bandplot, but,
I asked why my call to identify wasnt working. Thanks to Petr Pikal,
Tom Mulholland, Gavin Simpson, and Duncan Murdoch for explaining that I
had misinterpreted the ?identify help page, and that I needed to feed
both the x and y vectors in the plot to identify(). Its working fine
for me now.
Dear all,
I'm trying to find a clear explanation of what the 'proj(lm)' function
produces after having fit a linear model using 'lm'. I find the help
page on the proj() function highly unclear (surely part to my limited
knowledge of statistics). Can anybody provide a pointer to a clearer
I'm trying to evaluate a pre-built expression using eval(), e.g.
dataset - data.frame(y = runif(30, 50,100), x = gl(5, 6))
# one like this
mf - expression(model.frame(y~x))
eval(mf, dataset, parent.frame())
# rather than this
eval(expression(model.frame(y~x)), dataset, parent.frame())
In the
Jacques VESLOT wrote:
Could someone please make me know if there is a nice script editor available
under Mac, similar to Crimson, that offers R syntax highlighting (and pairs
of parentheses underlining) ?
Did you look into BareBone's TextWrangler, 'BBEdit Lite' replacement?
It's now available
If you look at the beginning of lm(), you'll see that match.call() is
used and name of the function (in this case f1) is replaced with
model.frame. Does something like this work?
f1 - function(formula, data) {
mf - match.call(expand.dots = FALSE)
mf[[1]] - as.name(model.frame)
Dear Piet,
You'll find more of an explanation in Sec. 5.3.3 of Chambers and Hastie,
eds., Statistical Models in S.
Briefly, proj() computes the orthogonal projections of the response (y)
sequentially onto the subspaces spanned by columns of the model matrix (X)
corresponding to terms in the
Dear People,
I'm trying to write an R wrapper for a C++ library, using .Call. I've
never used .Call before. I'm currently having some difficulties converting
a R character string to a C one.
Here is a little test program.
#include R.h
#include Rinternals.h
#include stdio.h
SEXP testfn(SEXP
Faheem Mitha wrote:
SEXP testfn(SEXP chstr)
{
char * charptr = CHAR(chstr);
printf(%s, charptr);
}
I am sure I am making an obvious mistake, but can someone help me to
sort it out? Thanks in advance. Please cc me, I'm not subscribed.
Firstly, R is expecting an SEXP as a return value! And
On Mon, 24 Jan 2005, Faheem Mitha wrote:
I'm trying to write an R wrapper for a C++ library, using .Call. I've never
used .Call before. I'm currently having some difficulties converting a R
character string to a C one.
Here is a little test program.
#include R.h
#include Rinternals.h
#include
That's what ifelse is for:
ifelse(fpr(b, k.floor) fpr(b, k.ceiling), k.floor, k.ceiling)
Reid Huntsinger
-Original Message-
From: [EMAIL PROTECTED]
[mailto:[EMAIL PROTECTED] On Behalf Of Seung Jun
Sent: Friday, January 21, 2005 5:27 PM
To: R-help@stat.math.ethz.ch
Subject: [R]
Hi Barry,
Thanks for your reply.
On Mon, 24 Jan 2005, Barry Rowlingson wrote:
Firstly, R is expecting an SEXP as a return value!
Ouch...
I haven't found anything that says this explicitly, but it looks like
.Call expects a SEXP to be returned to R. At any rate, trying to use void
instead gives a
Dear Christoph,
what command are you using to plot the residuals? If you use the
default residuals it will not reflect the variance model. If you use
the argument
type=p
then you get the Pearson residuals, which will reflect the weights
model. Try something like this:
plot(model, resid(.,
A couple of weeks ago there was a question regarding apparent
convergence in nls when using the SSfol selfStart model for fitting a
first-order pharmacokinetic model. I can't manage to find the original
message either in my archive or in the list archives but the data were
time conc dose
Hello,
I'm a new R user and I'm having a little trouble getting started. I'm
hoping
someone can help me out. I read numbers (integer) from a SQL database.
Some calculations as mean()are possible but hist() give an error. Here
are the commands:
library(RMySQL)
Loading required package: DBI
con
jcb wrote:
Hello,
I'm a new R user and I'm having a little trouble getting started. I'm
hoping
someone can help me out. I read numbers (integer) from a SQL database.
Some calculations as mean()are possible but hist() give an error. Here
are the commands:
library(RMySQL)
Loading required
Has anyone else ran into problems installing Rggobi with R 2.0.1 on a
windows platform? I've followed all the instructions available and I
still can not get R to recognize Rggobi as a library (package). I
I've already emailed Duncan Temple Lange at ggobi.org and bell labs
and both emails have
Hi,
There is also SubEthaEdit, quite an elegant editor with R/S syntax
highlighting
as 1 of the many available modes.
With AppleScript its easy to sent the edit window, a file, a selection
etc. to R for
execution.
http://www.codingmonkeys.de/subethaedit/
Rob
On Jan 24, 2005, at 8:41 AM, Paul
Having a very strange and frustrating problem with v2.0.1 under Mac OSX
10.3. I have several closely related workspaces in the same directory that I
need to keep separate from one another (there are a few objects common to
all workspaces, and then there are other objects that store the results
From: Ken Termiso
Having a very strange and frustrating problem with v2.0.1
under Mac OSX
10.3. I have several closely related workspaces in the same
directory that I
need to keep separate from one another (there are a few
objects common to
all workspaces, and then there are other
Marco Chirandini writes:
is there any extension of the pairwise Wilcoxon test to a dependent
samples layout with replicates (or, in other terms, a one-way layout
with blocking and replicates)?
The Wilcoxon method with matched pairs works for the case of dependent
samples with one observation per
Greetings,
Thanks for your time in reviewing the following role located in the RTP, NC
area.
Our client is a drug development platform technology company whose
patent-pending intellectual property is poised to dramatically impact both
drug discovery and development processes by accurately
I have some data coming from SQL sources that I wish to relate in various ways.
For reasons only known to our IT people, this can't be done in SQL at present.
I am looking for an R'ish technique for looking up new columns on a data frame.
As a simple, hardwired example I have tried the
All together now:
?merge
:-)
-Original Message-
From: [EMAIL PROTECTED] on behalf of Paul Sorenson
Sent: Mon 1/24/2005 10:34 PM
To: r-help@stat.math.ethz.ch
Cc:
Subject:[R] lookups and joins
I have some data coming from SQL sources that I wish to relate in various
What is the difference between the above two operations ?
[[alternative HTML version deleted]]
__
R-help@stat.math.ethz.ch mailing list
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide!
Hi
Cari G Kaufman wrote:
Hello,
Does anyone know how to make movies in R by making a sequence of plots?
I'd like to animate a long trajectory for exploratory purposes only,
without creating a bunch of image files and then using another program to
string them together. In Splus I would do this
Hi
Bobai Li wrote:
Hi,
I have been using R to create some mathematical and statistical graphs
for a book manuscript, but I got some problems:
1) Some web positngs said that default typeface for math expressions is
italic, but in my system (R 2.01 on WinXP), the default is regular font.
How can
I am still trying to find a common intercept but a different slopes for each
group within my lifetime data. By stratifying the variable stress (the groups)
I get different scale parameters which is not my goal.
So I did this:
survreg(Surv(lfailure)~as.factor(stress),data=steel,dist=extreme)
Just look at the code:
weighted.mean
function (x, w, na.rm = FALSE)
{
if (missing(w))
w - rep.int(1, length(x))
if (is.integer(w))
w - as.numeric(w)
if (na.rm) {
w - w[i - !is.na(x)]
x - x[i]
}
sum(x * w)/sum(w)
}
environment:
Hi,
I am new here.
I used y-kmeans(x, 2)(x is a vector) to do the cluster analysis. I get
y has $cluster, $center etc. I need to pull out the data belong to
cluster 1 and cluster 2. How can I do that?
Thanks,
Ming
__
R-help@stat.math.ethz.ch
From: [EMAIL PROTECTED]
Hi,
I am new here.
I used y-kmeans(x, 2)(x is a vector) to do the cluster
analysis. I get
y has $cluster, $center etc. I need to pull out the data belong to
cluster 1 and cluster 2. How can I do that?
Here's an example:
cl - round(runif(20))
x -
Hi,
I created an rpart object and pruned the tree using
1-SE rule. I used 10-fold cross validation while
creating the tree. Then, I extracted the
cross-validated predictions for my data points using
xpred.rpart and obtained some statistics like
precision, recall, overall error rate, etc.
Recursive default argument reference keeps appearing when I try to run a
haplo.score function in R for Windows. I'm new to using this program. Does
anyone know what this means?
-
[[alternative HTML version deleted]]
I haven't read the book, but could anyone explain more
about this parameter?
help(agnes) says that ac measures the amount of
clustering structure found. From the definition given
in help(agnes.object), however, it seems that as long
as
the dissimilarity of the merger in the final step of
the
Hi,
Is there a Zipf-like distribution RNG in R?
Thanks,
Weiguang
__
R-help@stat.math.ethz.ch mailing list
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
That's the way John Fox advised to turn the problem. Indeed it works but
doe snot explain this bug in lazy loading. I don't think that it may come
for a syntax error somewhere. All the functions have been checked and the
problem does not occur if any of the 35 functions is removed. Something
On 24 Jan 2005 at 14:44, Christoph Lehmann wrote:
Hi
I have 10 variables and 2 groups. I know how to plot a bwplot for ONE
var. e.g.
var.a var.b var.c .. GROUP
0.2 0.5 0.2 .. 0
0.3 0.2 0.2 .. 0
..
0.1 0.8 0.7 .. 1
0.5 0.5 0.1 .. 1
..
bwplot(var.a ~
I am currently analyzing a dataset using lme(). The model I
use has the following structure:
model-lme(response~Covariate+TreatmentA+TreatmentB,
random=~1|Block/Plot,method=ML)
When I plot the residuals against the fitted values, I see a clear
positive trend (meaning that
Hello,
thank you very much for your help in last email. it is very helpful. right now,
i have more questions about my project,
1. solve can i remove the NA from a vectors:
for exmample, if my vector is:
v - (NA, 1, 2, 3, 4, 5)
how can I remove the NA from vector v
2. how I can get input from
76 matches
Mail list logo