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On 20 Dec 2004 at 7:11, Bernd Weiss wrote:
Hi,
has anyonne experienced problems between the LaTeX beamer class and
Sweave? The following code does not work properly:
# \documentclass{beamer}
\usepackage[latin1]{inputenc}
\usepackage[T1]{fontenc}
Hello!
I have just upgraded from the R 1.9.1 to the latest version and
installed a couple of packages. I as a rule import only base package
with this couple of packages at startup. I was very impressed with the
speed R2.0.1 does now run (it seems to me I have 50% gain over 1.9.1
version). My
Hello!
I have just upgraded from the R 1.9.1 to the latest version and
installed a couple of packages. I as a rule import only base package
with this couple of packages at startup. I was very impressed with the
speed R2.0.1 does now run (it seems to me I have 50% gain over 1.9.1
version). My
I have been asked to look some data generated on affy-platform. Due to
biological reasons the data owners want to look at PM values only, i.e ignore
the MM values. Hence my question is:
What is the best option available for normalizing affy data using the PM
intensities only.
I appologize if
I compiled your code exactly as posted but had no problem at all!! I'm using
Debian-GNU/Linux Emacs, so possibly this has to do with your editor
Ste
-- Messaggio Originale --
From: Bernd Weiss [EMAIL PROTECTED]
To: [EMAIL PROTECTED]
Date: Mon, 20 Dec 2004 07:11:31 +0100
Subject: [R] Sweave and
Hi R-users,
I have a collection of dataframes and know how to build
a string that refers to it, in this example, name_infra_alg_inc.
Then, I have a character string yval, which the user can select
from a drop down list. It contains the column names of the
dataframes.
R user wrote:
Hi R-users,
I have a collection of dataframes and know how to build
a string that refers to it, in this example, name_infra_alg_inc.
Then, I have a character string yval, which the user can select
from a drop down list. It contains the column names of the
dataframes.
[EMAIL PROTECTED] wrote:
Hello!
I have just upgraded from the R 1.9.1 to the latest version and
installed a couple of packages. I as a rule import only base package
with this couple of packages at startup. I was very impressed with the
speed R2.0.1 does now run (it seems to me I have 50% gain over
Tiago R Magalhaes wrote:
I am trying to make a graph with 4 scatter matrixes plots and
couldn't do it. While trying to find a solution for this I also came
across the idea of giving different values to the same argument for
each of the lower and upper function but couldn't do it. (Examplified
Paul Hewson wrote:
Hello,
(apologies, I'm not entirely sure whether this question is about R or my
limitations with PowerPoint). I've submitted a paper (which has been
accepted) but the journal now require me to submit graphs that are
editable in PowerPoint. I would be grateful for suggestions
Hi
I have been creating very, very long jpeg images for the last two weeks
using jpeg(). All of a sudden, and I mean that, it's stopped working -
I've not changed a thing! The error message I get is:
jpeg(out.jpg,width=5,height=480, quality=100)
Error in devga(paste(jpeg:, quality, :,
Paul--
It is hard to fight the tide, even when it contains sewage, but (you
probably agree) this is an idiotic requirement. Not only does this
journal want to change your work (which journals do much too much), they
also want you to help them use of low-class tools to do so.
You could try
michael watson (IAH-C) wrote:
Hi
I have been creating very, very long jpeg images for the last two weeks
using jpeg(). All of a sudden, and I mean that, it's stopped working -
I've not changed a thing! The error message I get is:
jpeg(out.jpg,width=5,height=480, quality=100)
Error in
In response to Mark Kimpel's query about FDR implementations in R I thought it
might
be pertinent to mention the qvalue package written and maintained by Alan
Dabney and
John Storey and obtainable from http://faculty.washington.edu/~jstorey/qvalue/
(this is
also mirrored in the packages
On Sun, 19 Dec 2004, JRG wrote:
On 20 Dec 2004 at 1:11, Peter Dalgaard wrote:
Yes... If you use the test as a preliminary to an ANOVA, which largely
depends on second order properties, I think it is reasonable to assume
that you really mean to compare the variances. It's always been a
mystery to
Dear Colleagues,
Is there any package in R/S-plus which does feature selection for SVM? I am
working with 8 features. Since SVM is regularization based method, I am not
sure if I need to do feature selection for it. In anycase, I would really like
to know if there is any package for feature
Hi Marco
I would need to extend the Friedman test to a replicated
design. Currently the function: friedman.test(y, ...) only works for
unreplicated designs.
You'll find something about this topic in:
Myles Hollander Douglas A. Wolfe (1999), _Nonparametric
statistical methods_. 2nd edition,
It is also several times greater than the limit of human perception, being
several feet long at printing resolutions that need a magnifying glass
to see.
This is Windows and the limit is in the graphics card: mine is able to do
this but I suspect you need a 128Mb card (that jpeg is of itself
I am a partner at Assembla, a software services group that helps companies
make use of open source techniques and software. We have been asked by a
company in the financial services sector to provide support for their use of
R, Rmetrics and possibly SciViews.
I am trying to locate other
A representative from Spotfire (www.spotfire.com) told me they can
link to S-Plus and R, and they use those links to produce custom code
for customers. By the General Public License (GPL), Spotfire is
required to offer under the GPL the code for how they link to R, but
they don't have to
R folks:
I appreciate and have learned from the recent SAS vs R and Bad Excel
Calculations threads. Not only civil, but even at times erudite,
discussion. So I apologize for the lateness of this remark and hope it isn't
redundant or trivial.
To those who may wonder why SAS is so dominant in the
Dear R users,
I have a data frame with a few thousand rows and several hundred
numeric columns (plus a date column). For each row (day), I want to
assign +/- 1 to the highest X absolute values, 0 to the other values,
and save all that in a separate data frame.
I have a working solution (below),
Something like this perhaps?
x - matrix(rnorm(1000),ncol=10)
y - t(apply(abs(x),1,rank,ties.method=first))
thresh - 8
x[ythresh] - sign(x[ythresh])
x[y=thresh] - 0
-Original Message-
From: [EMAIL PROTECTED]
[mailto:[EMAIL PROTECTED] On Behalf Of bogdan romocea
Sent: Monday,
Spotfire communicates with R and S-PLUS via SOAP (in R's case, via Greg
Warnes' RSOAP server). I would guess that `linking' at that level with GPL
software does not make the code on the Spotfire side GPL. The two systems
don't even have to live on the same computer (and most likely, don't).
Thanks for the tip about Spotfire. We are trying to locate companies that
would be interested in joining a collaborative effort to fund modifications,
enhancements and customizations to R. Some efforts, such as improving
performance for large datasets, would be released under the GPL. Other
I try to send this message To Gordon Smyth at [EMAIL PROTECTED],edu.au but it
bounced
back, so here it is to r-help
I am trying to use limma, just downloaded it from CRAN. I use R 2.0.1 on Win XP
see the following:
library(RODBC)
chan1 - odbcConnectExcel(D:/Data/mgc/Chips/Chips4.xls)
dd -
Surprisingly, Internet Explorer (which due to it's browser dominance will be
the main, but not sole, purveyor of the images I create) loads this image up in
a few seconds and allows the user to scroll along it very nicely. The image is
really for demonstration purposes only, and many people
Could you give a bit more detail about your experimental design? You're using
affy, so you're working with single channel data - so nzw, akr and bas all have
six arrays?
-Original Message-
From: [EMAIL PROTECTED] on behalf of [EMAIL PROTECTED]
Sent: Mon 12/20/2004 8:45 PM
To:
On Monday 20 December 2004 15:29, Ted Harding wrote:
[...]
The lme4 and nlme packages should not be loaded simultaneously.
Use one or the other but not both.
Doug,
Thanks a lot for these clarifications. This still leaves me with
a question or two.
Suppose I want (as I do) to work
Hi All,
I'm analysing some data that is conventionally modelled as log(Y) = a + bX + e.
However, using the boxcox function, it appears that the optimum value of
lambda is approx 0.05. I have 40 data sets of differing sizes and for about
half of these, lambda is significantly non-zero. So,
Hi
Sorry to join this thread late. As a couple of people have pointed out,
no general solution exists currently. It's an interesting problem
though and something that I have experimented with in a couple of ways
in the past. I have written down some thoughts about the issues and
described a
(Ted Harding) wrote:
On 20-Dec-04 Douglas Bates wrote:
This is a new version of SASmixed that was uploaded a couple of days
ago. I changed it so that the fits are done with the lme4 version of
lme. It should be faster and more reliable than the version of lme in
the nlme package.
This
It probably bounces because the email address is incorrect (it should be a
'w', not a 'v'). /Henrik Bengtsson
-Original Message-
From: [EMAIL PROTECTED]
[mailto:[EMAIL PROTECTED] On Behalf Of
[EMAIL PROTECTED]
Sent: Monday, December 20, 2004 9:45 PM
To: [EMAIL PROTECTED]
Subject:
On Mon, 2004-12-20 at 10:38 -0800, Berton Gunter wrote:
R folks:
I appreciate and have learned from the recent SAS vs R and Bad Excel
Calculations threads. Not only civil, but even at times erudite,
discussion. So I apologize for the lateness of this remark and hope it isn't
redundant or
Hi
Uwe Ligges wrote:
Tiago R Magalhaes wrote:
I am trying to make a graph with 4 scatter matrixes plots and couldn't
do it. While trying to find a solution for this I also came across the
idea of giving different values to the same argument for each of the
lower and upper function but couldn't
Paul Livingstone [EMAIL PROTECTED] writes:
The alternative model, Y^lambda = a + bX + e, has been explored
before by non-statistician colleagues. But instead of using boxcox
and maximising the profile likelihood, the model has been twisted,
shuffled, differenced and logged, to get
Dear R Masters,
I have searched high and low (the help archives and my various R reference
material and help files) for a solution to what appears to me to be quite a
simple problem. In the following syntax, variable n10 has three levels. I
would like the symbols that appear in the graph for
Hello:
I would like to flag certain warnings to make them
into errors. I thought I could do this by giving
warning.expression a function to evaluate, in which I
could check the warning message and call stop if I
want.
I tried this:
options(warning.expression=expression(myfunction()))
but it
Hello:
I recently asked the list a question regarding
warning.expression. This is a different statement of
the problem.
I am doing a large simulation experiment using nlme
and most of the data realizations run fine. The
simulations stall, however, on a few particularly
noisy data sets. What
Hi Greg
Try the argument col within plot. Using your example you could try:
s - summary(n10 ~ n13, method=reverse, test=T)
col - c(black, maroon, red)
plot(s, dotsize=1.2, col =col[YourData[,n10]] ,cex.labels=.7, cex.axis=.5,
cex.main=.5, which=categorical)
I hope that this helps
Francisco
PS:
JJ josh8912 at yahoo.com writes:
:
: Hello:
: I recently asked the list a question regarding
: warning.expression. This is a different statement of
: the problem.
:
: I am doing a large simulation experiment using nlme
: and most of the data realizations run fine. The
: simulations stall,
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