When I fit a model like glm(gb~bs(age,df=6)), I obtain 7 estimates. Can
anybody explain me where they stand for?
Thank you
Niel Hens
Center For Statistics
Limburgs Universitair Centrum
Universitaire Campus, Building D
3590 Diepenbeek
Tel: +32-11-26 82 32
Fax: +32-11-26 82 99
Email:
On Tue, 2003-10-07 at 01:00, Peter Dalgaard BSA wrote:
Javier Arsuaga [EMAIL PROTECTED] writes:
I am trying to install R in Linux 8.0 and I downloaded
R-1.7.1-1.i386.rpm and did rpm -hiv R-1.7.1-1.i386.rpm
and I am getting the following message:
warning: R-1.7.1-1.i386.rpm: V3 DSA
Hi,
Does anyone have any advice on speeding up R functions (short of re-implementing them
in C :-) )?
I have a function that applies a wilcoxon test to 12 sets of about a quarter of a
million pairs (and takes about 3 hours). I've replaced the inner loop I had originally
with a function call
Dear all,
Sorry for the bad use of the list I did;
I'm very young, only 4 days old to this list :-)
Thanks a lot for your help and your hints:
At 09.01 06/10/03 +0200, you wrote:
mono.con(mgcv) Monotonicity constraints for a cubic
regression spline.
That is
Hi,
I want R to be installed on a UNIX network (Solaris). I am not the system
administrator and so I cannot do it myself.
The system administrator wants to know which packages I want, and it may be
a lot.
Is there an easy way to download and install all packages at once?
Is it a good idea?
Crispin Miller wrote:
Hi,
Does anyone have any advice on speeding up R functions (short of re-implementing them
in C :-) )?
Some strategies are in every good book on S/R.
I have a function that applies a wilcoxon test to 12 sets of about a quarter of a million pairs
... and let me guess:
Hello,
I have a problem, I can't install the package 'mgu74av2cdf'. I
downloaded the zip file, yet when asked the R console to install it
from a zip file, I got the answer:
Error in file(file, r) : unable to open connection
In addition: Warning messages:
1: error -1 in
I have a function that applies a wilcoxon test to 12 sets of about a quarter of a
million pairs
... and let me guess: everything is significiant to an almost arbitrary
value of \alpha?
:-) For each of quarter of a million sets, I do a wilcoxon between two pairs each
containing twenty
Yair Snir wrote:
Hello,
I have a problem, I can't install the package 'mgu74av2cdf'. I
downloaded the zip file, yet when asked the R console to install it
from a zip file, I got the answer:
Error in file(file, r) : unable to open connection
In addition: Warning messages:
1:
Crispin Miller wrote:
I have a function that applies a wilcoxon test to 12 sets of about a quarter of a million pairs
... and let me guess: everything is significiant to an almost arbitrary
value of \alpha?
:-) For each of quarter of a million sets, I do a wilcoxon between two pairs each
Uwe Ligges [EMAIL PROTECTED] writes:
Yair Snir wrote:
Hello,
I have a problem, I can't install the package 'mgu74av2cdf'. I
downloaded the zip file, yet when asked the R console to install it
from a zip file, I got the answer:
Error in file(file, r) : unable to open
If I produce lots of figures at one time, how can I make R graphics keep all the
figures already made?
thanks,
Xinyue Ye, Research Assistant
Institute for Geo-spatial Research and Education
125 King Hall
Eastern Michigan University
Ypsilanti MI 48197
http://ceita.emich.edu/
xinyue ye [EMAIL PROTECTED] wrote:
If I produce lots of figures at one time, how can I make R
graphics keep all the figures already made? thanks,
Open as many graphics devices as needed.
See the examples in:
?dev.list
--
Philippe
__
[EMAIL
Yup, my mistake for not being very clear! Alas the computer is already very fast -
looks like it's C for me...
-Original Message-
From: Patrick Burns [mailto:[EMAIL PROTECTED]
Sent: 07 October 2003 12:00
Cc: Crispin Miller
Subject: Re: FW: [R] Optimising code
I had
xinyue ye schrieb:
If I produce lots of figures at one time, how can I make R graphics keep all the figures already made?
thanks,
write it to a postscript() or pdf() file or to several bitmaps, see
png() for examples.
If you are on Windows, there is a Recording function in the menu, if the
Christian Hennig wrote:
Hi,
I want R to be installed on a UNIX network (Solaris). I am not the system
administrator and so I cannot do it myself.
The system administrator wants to know which packages I want, and it may be
a lot.
Is there an easy way to download and install all packages at
If you are only interested in calculating the wilcoxon statistic (as one
would with calculating permutated p-values for example), the following
should suffice.
length.na - function(x, ...){
tmp - !(is.na(x) | is.infinite(x))
length(x[tmp], ...)
}
rank.na - function(x){
y - x[!is.na(x)];
I am dealing with a huge matrix in R (20 columns, 54000 rows) and have
lots of missing values within the dataset which are currently displayed as
the value -999.00 I am trying to create a new matrix (or change the
existing one) to display these values as NA so that I can then perform
the necessary
At 13:31 2003-10-07 +0200, you wrote:
If I produce lots of figures at one time, how can I make R graphics keep
all the figures already made? thanks,
If you are on Windows, there is a Recording function in the menu, if the
graphics window is activated.
Actually, the recording of plots can be
I once copied all the contrib package sources from CRAN to a local
directory (I used an ftp client, but you could use rsync or wget : just
don't do it recursively or you will get the Archive too) and ran
R CMD INSTALL *.tar.gz
The only overhead in installing all packages at once is disc space:
Christian Hennig [EMAIL PROTECTED] writes:
I want R to be installed on a UNIX network (Solaris). I am not the system
administrator and so I cannot do it myself.
The system administrator wants to know which packages I want, and it may be
a lot.
Is there an easy way to download and install
Laura Quinn [EMAIL PROTECTED] writes:
I am dealing with a huge matrix in R (20 columns, 54000 rows) and have
lots of missing values within the dataset which are currently displayed as
the value -999.00 I am trying to create a new matrix (or change the
existing one) to display these values as
On Tue, 7 Oct 2003, Laura Quinn wrote:
I am dealing with a huge matrix in R (20 columns, 54000 rows) and have
lots of missing values within the dataset which are currently displayed as
the value -999.00 I am trying to create a new matrix (or change the
existing one) to display these values as
On Tue, 7 Oct 2003, Henric Nilsson wrote:
At 13:31 2003-10-07 +0200, you wrote:
If I produce lots of figures at one time, how can I make R graphics keep
all the figures already made? thanks,
If you are on Windows, there is a Recording function in the menu, if the
graphics window is
I cannot explain the segmentation fault but try this instead (which
works for matrices)
temp[which(temp==-999, arr.ind=T)] - NA
Are you sure temp is matrix and not a dataframe ? Use class(temp) to
find out.
Also, if you are getting these -999.00 because you have read files
containing them, it
Laura Quinn wrote:
I am dealing with a huge matrix in R (20 columns, 54000 rows) and have
lots of missing values within the dataset which are currently displayed as
the value -999.00 I am trying to create a new matrix (or change the
existing one) to display these values as NA so that I can then
This is a question for the Bioconductor listserv, not R-help. In
addition, all current versions of affy will automagically download and
install any cdfenvs that you may need, so there is no need to do this
manually. If anything, you may need to update your version of affy.
Jim
James W.
thanks, have used
temp [temp==0]- NA
and this seems to have worked, though it won't let me access individual
columns (ie temp$t1 etc) to work on - is there any real advantage in using
a matrix, or would i be better advised to deal with dataframes? (I have
double checked and temp is currently a
Adaikalavan RAMASAMY wrote:
I cannot explain the segmentation fault but try this instead (which
works for matrices)
temp[which(temp==-999, arr.ind=T)] - NA
No! Please *do* use is.na()- !!!
Uwe Ligges
Are you sure temp is matrix and not a dataframe ? Use class(temp) to
find out.
Also, if you
On Tue, 7 Oct 2003, Laura Quinn wrote:
thanks, have used
temp [temp==0]- NA
and this seems to have worked, though it won't let me access individual
columns (ie temp$t1 etc) to work on - is there any real advantage in using
a matrix, or would i be better advised to deal with dataframes?
Laura Quinn wrote:
thanks, have used
temp [temp==0]- NA
Please use
is.na(temp[temp==0]) - TRUE
and this seems to have worked, though it won't let me access individual
columns (ie temp$t1 etc)
No! temp$t1 is a list element or column of a data.frame, but not a
column of a matrix. *PLEASE*,
On Tue, 07 Oct 2003 14:37:26 +0200, Uwe Ligges
[EMAIL PROTECTED] wrote :
2. Use is.na(x) - TRUE instead of x - NA:
is.na(temp[temp[ ,t1] == -999.00, t1]) - TRUE
I hadn't heard this advice before. The online help ?is.na gives this
cryptic advice:
Function 'is.na-' may provide a safer
Hi - so I've dusted off the C bits of my brain and gotten a library written for my
package...
It passes R CMD check ok, and I've put a file called '.First.lib.R' in the pacakge's
'R' subdirectory. Its permissions are 644.
It says:
.First.lib - function(lib,pkg) {
Regarding an old version of foreign allegedly being able to read the file at
http://www.ats.ucla.edu/stat/stata/examples/rwg/concord1.dta
Thomas Lumley [EMAIL PROTECTED] responded to my call for help:
I don't know why it used to work. The file begins with 'h' (0x68), which
isn't in my list of
On Tue, 7 Oct 2003, Bernd Weiss wrote:
Dear all,
I would like to know if it possible to use the the robcov()-command in
the Design- package in order to obtain a robust variance-estimate that
adjusts for within-cluster correlation. Does the ids-option in the
survey-package the same job?
Duncan Murdoch wrote:
On Tue, 07 Oct 2003 14:37:26 +0200, Uwe Ligges
[EMAIL PROTECTED] wrote :
2. Use is.na(x) - TRUE instead of x - NA:
is.na(temp[temp[ ,t1] == -999.00, t1]) - TRUE
I hadn't heard this advice before. The online help ?is.na gives this
cryptic advice:
Function 'is.na-'
From the R-exts manual:
The R subdirectory contains R code files. The code files to be installed
must start with a (lower or upper case) letter and have one of the
extensions .R, .S, .q, .r, or .s. We recommend using .R, as this extension
seems to be not used by any other software. It should
On Tue, 7 Oct 2003, Crispin Miller wrote:
Hi - so I've dusted off the C bits of my brain and gotten a library written for my
package...
It passes R CMD check ok, and I've put a file called '.First.lib.R' in the pacakge's
'R' subdirectory. Its permissions are 644.
It says:
Thanks - it is indeed the first '.' that's the problem...
Crispin
-Original Message-
From: Liaw, Andy [mailto:[EMAIL PROTECTED]
Sent: 07 October 2003 15:21
To: Crispin Miller
Subject: RE: [R] .First.lib doesn't appear to be running after calling
lib rary()
I put .First.lib in
Greg -
I am puzzled that the total counts in table(qs2) and table(qs9)
could be different, if these are in fact two columns from the same
data frame. I'm guessing that there are NAs in one or both columns,
in addition to the digits 1,2,3,4, and that table() by default
does not show them.
Dear all,
Could anyone please tell me how to sort a matrix or a data frame against a
column/row/component?
Many thanks.
-MY
__
[EMAIL PROTECTED] mailing list
https://www.stat.math.ethz.ch/mailman/listinfo/r-help
Yao, Minghua wrote:
Dear all,
Could anyone please tell me how to sort a matrix or a data frame against a
column/row/component?
See ?order
Uwe Ligges
Many thanks.
-MY
__
[EMAIL PROTECTED] mailing list
Using R-1.8.0 (d/l and compiled on 2003-10-01) on WinXP, I seem to be
unable to determine the maximum memory allocated to R. The help still
says to use memory.limit(size=NA), but this returns the value NA.
In addition, I have set --max-mem-size=2G but I run out of memory
somewhere around 500Mb
I'm having trouble finding an R equivalent to the S-Plus multicomp
function, which does post-hoc comparisons of treatments means in
ANOVAs. Am I missing something obvious?
Thanks, Peter
Peter Adler, PhD
Dept. Ecology, Evolution and Marine Biology
University of
Hi
I use the script in the attached file to do this
Cheers
P.J.
On Tue, 7 Oct 2003, Uwe Ligges wrote:
Christian Hennig wrote:
Hi,
I want R to be installed on a UNIX network (Solaris). I am not the system
administrator and so I cannot do it myself.
The system administrator wants
James MacDonald wrote:
Using R-1.8.0 (d/l and compiled on 2003-10-01) on WinXP, I seem to be
unable to determine the maximum memory allocated to R. The help still
says to use memory.limit(size=NA), but this returns the value NA.
In addition, I have set --max-mem-size=2G but I run out of memory
On 10/07/03 09:05, Peter Adler wrote:
I'm having trouble finding an R equivalent to the S-Plus multicomp
function, which does post-hoc comparisons of treatments means in
ANOVAs. Am I missing something obvious?
The package called multcomp? I don't know if it is the same.
--
Jonathan Baron,
If it's really true that you will be the only user of R, then it
might be easier to build it in some place where you do have the
necessary permissions. You would then follow the suggestion in the
provided INSTALL file (from R 1.7.1):
quote
INSTALLATION
You do not need to install R to
Hi
I didn't find this in the manual: I need to change the width of a plot
while I use sweave, so which command/parameters should I insert below,
to change the width of a plot
\begin{figure}[htbp]
\begin{center}
echo=TRUE, fig=TRUE=
plot(Re(q),ylab =,type=o,col=blue,lwd=1, sub=mystring)
@
On Tuesday 07 October 2003 19:19, Christoph Lehmann wrote:
Hi
I didn't find this in the manual: I need to change the width of a
plot while I use sweave, so which command/parameters should I insert
below, to change the width of a plot
\begin{figure}[htbp]
\begin{center}
echo=TRUE,
On Tue, 7 Oct 2003, Jonathan Baron wrote:
On 10/07/03 09:05, Peter Adler wrote:
I'm having trouble finding an R equivalent to the S-Plus multicomp
function, which does post-hoc comparisons of treatments means in
ANOVAs. Am I missing something obvious?
The package called multcomp? I
I'm still having problems installing rimage - the installation can't
find the fftw headers. As suggested, I installed the fftw rpm (for RH 9
from freshrpms). It installed without any errors or warnings. Yet I get
exactly the same error message - it can't find the fftw headers.
What do I have
Rick Bilonick [EMAIL PROTECTED] writes:
I'm still having problems installing rimage - the installation can't
find the fftw headers. As suggested, I installed the fftw rpm (for RH
9 from freshrpms). It installed without any errors or warnings. Yet I
get exactly the same error message - it
Hi,
I plan to use R on IBM AIX machines (4.x.x), and hoping some feedbacks
from R users on this OS. I've looked at the R search site, my impression
is that there would be very few peoples who are currently using R
on AIX, correct me if I'm wrong.
To compile R on AIX, I have two little questions:
Aren't the headers usually in the devel package (e.g.,
fftw-devel-2.1.5-0.dag.rh73.i386.rpm)? You might try installing the
devel package too.
HTH
Jim
James W. MacDonald
Affymetrix and cDNA Microarray Core
University of Michigan Cancer Center
1500 E. Medical Center Drive
7410 CCGC
Ann Arbor MI
I am puzzled by the advice to use is.na(x) - TRUE instead of x - NA.
?NA says
Function `is.na-' may provide a safer way to set missingness. It
behaves differently for factors, for example.
However, MAY provide is a bit scary, and it doesn't say WHAT the
difference in behaviour is.
I
Hi folks,
On quitting R with q(), is it possible to save the workspace
to a directory other than the one R was started from?
(I sometimes have a project master directory with the major
R code and data in that directory, but divisions of the project
having their specific stuff in sub-directories.
On Tue, 2003-10-07 at 19:00, [EMAIL PROTECTED] wrote:
Hi folks,
On quitting R with q(), is it possible to save the workspace
to a directory other than the one R was started from?
(I sometimes have a project master directory with the major
R code and data in that directory, but divisions
I apologise in advance if this question ought to be
directed elsewhere. I'm trying to use the R sytnax
highlighter for JEdit. This was mentioned in R-help a while
ago and I'm hoping a few R users will have a (probably
obvious) solution.
(http://finzi.psych.upenn.edu/R/Rhelp02/archive/8812.html)
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