Hi there
I have precipitation data from 2004 to 2006 in varying resolutions (10 to 20min
intervals) with time in seconds from beginnig of the year (summation) and a
second variable as year.
I applied follwing code to convert the time into a date:
times-strptime(2004-01-01, %Y-%m-%d, tz=GMT) +
Hi
Arjun Ravi Narayan wrote:
Hi,
I am editing a document for submission to the R-news newsletter, and
in my article my Sweave code inserts a dynamically generated PDF
report that my R program generates.
However, when I insert the PDF using the following Sweave code:
\newpage
Hi,
yes, it is all about numerical accuracy;
x - c(6.402611, 6.402611, 6.420587)
x001 - sapply(1:9, function(type) quantile(x, probs=0.01, type=type))
names(x001) - NULL
print(x001)
## [1] 6.402611 6.402611 6.402611 6.402611 6.402611
## [6] 6.402611 6.402611 6.402611 6.402611
diff(x001)
## [1]
I Have been trying to create a recurrence plot for multiple copy number
alterations. Many of the articles I read have the plots but don't reference how
they are created. Almost all the articles use R to analyze the data so I assume
they use R to create the plots? I do find the plots mentioned
I'm trying to fit a naive Bayes model and predict on a new data set using
the functions naivebayes and predict (package = e1071).
R version 2.5.1 on a Linux machine
My data set looks like this. class is the response and k1 - k3 are the
independent variables. All of them are factors. The response
brew implements a templating framework for mixing text and R code for
report generation. brew template syntax is similar to PHP, Ruby's erb
module, Java Server Pages, and Python's psp module.
brew is written in R with no package dependencies, and it's not just for
the web. It can be used as an
[EMAIL PROTECTED] wrote:
Hi there
I have precipitation data from 2004 to 2006 in varying resolutions (10 to
20min intervals) with time in seconds from beginnig of the year (summation)
and a second variable as year.
I applied follwing code to convert the time into a date:
Hello,
I created a simple scatter diagram:
x= c(53, 52, 55, 65, 71, 69, 75, 78, 88, 70)
y= c(162, 165, 165, 171, 173, 175, 179, 181, 184, 176)
plot(x, y)
Now I would like to display the mean on that diagram.
Can anyone tell me what possibilities I have to do that?
Thanks in advance
Tobias
Arjun Ravi Narayan contact at arjunnarayan.com writes:
I am editing a document for submission to the R-news newsletter, and
in my article my Sweave code inserts a dynamically generated PDF
report that my R program generates.
Slightly off Arjuns topic is a problem with Schunk, Sinput and
Hi
[EMAIL PROTECTED] napsal dne 22.08.2007 09:10:26:
Hello,
I created a simple scatter diagram:
x= c(53, 52, 55, 65, 71, 69, 75, 78, 88, 70)
y= c(162, 165, 165, 171, 173, 175, 179, 181, 184, 176)
plot(x, y)
Now I would like to display the mean on that diagram.
do you think
Friedrich Schuster wrote:
Hello,
the main problem seems to be the if else, should be else if.
Your code is hard to read, maybe you should consider using more () {}:
T - 100;
br - matrix(0,T,4);
Thanks for the contribution. Please note:
a) It is a bad idea to have a variable
Anup Nandialath wrote:
Dear Friends,
I have a matrix of size 5000 X 20. The first two columns are indicator
variables taking the value of either 0 or 1. Let us call the first two
columns Y1 and Y2.
I need to randomly sample 1000 rows with all the associated columns, in other
words
Good Mornig All,
How R you today? ;o)
I have lots of questions, but i l start with the simplest one,
to wich i am shy to say, i did not find the answer.
It is the following:
When i make a summary plot like for example plot( summary(glm)),
i get one window, one main title, and 4 graph's in
Martin Maechler wrote:
OL == Ola Lindqvist [EMAIL PROTECTED]
on Tue, 21 Aug 2007 14:32:19 +0200 writes:
OL Thanks!
OL Seems to work fine now!
Well, for your example.
But sorry to say, the patch breaks other cases.
I'm investigating further
(and will hopefully
Hi there
Does anyone know, why this is not working?:
par(mfrow = c(5, 5))
for (i in 1:10){
plot(x=time, y=Var.i)
}
(x-variable is time
y-variable is Var out of matrix with columns Var.1 Var.2 Var.3 etc...)
even
for (i in 1:10){
plot(x=time, y=paste(Var, i, sep=.)
you need something like this:
par(mfrow = c(5, 5))
for (i in 1:10) {
nam - paste(Var., i, sep = )
plot(x = time, y = mat[, nam], xlab = Time,
ylab = nam)
}
where `mat' is the matrix containing Var.1, Var.2, Var.3, etc.
I hope it helps.
Best,
Dimitris
Dimitris Rizopoulos
Caroline Nganga wrote:
I have a data set which contains two columns. The first column is a
list of countries, and the second column contains their political risk
ratings. I would like to create one large plot that contains 5
different sections, each with a scatter plot. To clarify, I have
CGH
Hi,
I guess you should start looking at the bioconductor project.
http://www.bioconductor.org/packages/release/Software.html
best wishes,
ido
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PLEASE do read
Hi,
I am very intrigued by the idea of integrating
statistical analysis directly with a paper as Sweave
does it. But as I am collaborating with several people
and they won't have set up R and also they're very
unlikely interested in learning it, I am concerned
about how such an Latex/Sweave
?title, look at the 'outer' argument.
You can see further discussion of the outer margins in 'An Introduction to
R'.
I don't know why you are using win.graph(): it is a deprecated form of
windows() with many of the arguments taking unchangable defaults.
On Wed, 22 Aug 2007, Tom Willems wrote:
Sweave produces a TeX file which can be exchanged like any other such
file, providing that you give the possible graphic files (and bib,
etc.) called from the TeX code.
Best,
Renaud
2007/8/22, Werner Wernersen [EMAIL PROTECTED]:
Hi,
I am very intrigued by the idea of integrating
statistical
That sound's perfect, that's all I needed to know.
Thanks for your kind help,
Werner
--- Renaud Lancelot [EMAIL PROTECTED]
schrieb:
Sweave produces a TeX file which can be exchanged
like any other such
file, providing that you give the possible graphic
files (and bib,
etc.) called from
I don't think, this has been answered:
I'm trying to run a 3-way within-subject anova in lme with 3
fixed factors (Trust, Sex, and Freq), but get stuck with handling
the random effects. As I want to include all the possible random
effects in the model, it would be something more or less
I'm making plots where the x-axis variables are called l hl s (for
long half-long and short). I'd like them to appear in that
order, but they turn up in alphabetical order: hl l s.
Except for fiddling with the names of the variables, how can I fix
this? That is, how can I specify what order I
Thanks Mr.Pr. Ripley,
For pointing me in the good direction,
i use win.graph() so i get an overview of the different graphs.
Until now, i v had no problems with it, hope it stays that way.
for those whom have the same porblem, this is what i do:
win.graph(); op - par(mfrow = c(1,2) , oma=
Try this.
1. following Ben remove the Randalstown point and reset the levels of the
Location factor.
2. then replace solve with ginv so it uses the generalized inverse to calculate
the hessian:
alan2 - subset(alan, subset = Location != Randalstown)
alan2$Location -
Hi:
I need to apply the IRT model from Ramsay (1991), He apply the Smoothing Kernel
to multiple choice test. Is possible in R?.
Thank you,
Xavier G. Ordonez
Doctoral Student
Universidad Complutense de Madrid
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On 8/21/2007 10:20 PM, [EMAIL PROTECTED] wrote:
Dear R-helpers
Are there any established R packages that include a C code generator --
that generates new C language files and compiles them?
Oleg Sklyar's inline package does that. It takes input in the form of a
fragment of C (or C++,
On 8/22/2007 3:20 AM, Gregor Gorjanc wrote:
Arjun Ravi Narayan contact at arjunnarayan.com writes:
I am editing a document for submission to the R-news newsletter, and
in my article my Sweave code inserts a dynamically generated PDF
report that my R program generates.
Slightly off Arjuns
On 8/22/2007 6:40 AM, Renaud Lancelot wrote:
Sweave produces a TeX file which can be exchanged like any other such
file, providing that you give the possible graphic files (and bib,
etc.) called from the TeX code.
Yes, and since Sweave doesn't touch the formatting of the TeX code, it's
not
How do people go about synchronizing multiple workspaces on different
workstations? I tend to wind up with projects spread around the various
machines I work on. I find that placing the directories on a server and
reading them remotely tends to slow things down.
thanks,
Eric
--
Eric
You could use a versioning system like Subversion or Git on the server
but work with the local repository. I believe Git is the easier of the
two to set up.
Best,
Jim
Eric Turkheimer wrote:
How do people go about synchronizing multiple workspaces on different
workstations? I tend to wind
On 8/22/2007 9:20 AM, Eric Turkheimer wrote:
How do people go about synchronizing multiple workspaces on different
workstations? I tend to wind up with projects spread around the various
machines I work on. I find that placing the directories on a server and
reading them remotely tends to
Eric Turkheimer wrote:
How do people go about synchronizing multiple workspaces on different
workstations? I tend to wind up with projects spread around the various
machines I work on. I find that placing the directories on a server and
reading them remotely tends to slow things down.
If
Hi Duncan,
Duncan Murdoch wrote:
Slightly off Arjuns topic is a problem with Schunk, Sinput and Soutput
environments. They just use to much inline space. I have tweade this
problem with sed (see bellow for Makefile content), but wonder if there
is a better solution.
You can change the
Dear list
I have a function and a vector, say
f - function(a,b){a+b}
x - c(2,3)
I want to evaluate f on x in the sense of computing f(x[1],x[2]). I would
like it to be so that I can write f(x). (I know I can write a wrapper function
g - function(x){f(x[1],x[2])}, but this is not really
Try this:
do.call(f, as.list(x))
On 8/22/07, Søren Højsgaard [EMAIL PROTECTED] wrote:
Dear list
I have a function and a vector, say
f - function(a,b){a+b}
x - c(2,3)
I want to evaluate f on x in the sense of computing f(x[1],x[2]). I would
like it to be so that I can write f(x). (I
On 8/22/07, Søren Højsgaard [EMAIL PROTECTED] wrote:
I have a function and a vector, say
f - function(a,b){a+b}
x - c(2,3)
I want to evaluate f on x in the sense of computing f(x[1],x[2]). I would
like it to be so that I can write f(x). (I know I can write a wrapper
function g -
Hi Lorenz,
I really appreciate your comments.
If I understand correctly, you want to include the interactions
between the random and fixed terms?
Yes that is exactly I wanted to model.
This is done like:
model.lme - lme(Beta ~ Trust*Sex*Freq,
random =
To Mark Leeds and the others, thank you for solving my problem, and so quickly,
JM
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and
Hello,
What is the best way of solving this problem?
answer - ifelse(tf=TRUE, i * 5, previous answer)
where as an initial condition
tf[1] - TRUE
For example if,
tf - c(T,F,F,F,T,T,F)
over i = 1 to 7
then the output of the function will be
answer = 5 5 5 5 25 30 30
Thank you.
Phil,
If I understand correctly, you want to include the interactions
between the random and fixed terms?
Yes that is exactly I wanted to model.
This is done like:
model.lme - lme(Beta ~ Trust*Sex*Freq,
random = ~Trust*Sex*Freq|Subj, Model)
But this needs a lot of
library(zoo)
tf - c(T,F,F,F,T,T,F)
i - seq(7)
answer - ifelse(tf, i*5, NA)
answer - na.locf(answer)
On 8/23/07, Gladwin, Philip [EMAIL PROTECTED] wrote:
Hello,
What is the best way of solving this problem?
answer - ifelse(tf=TRUE, i * 5, previous answer)
where as an initial condition
Philip -
I don't know if this is the best way, but it gives you the output you
want.
Using your tf,
vals - rle(ifelse(tf, 5*which(tf), 0))
vals$values[vals$values == 0] - vals$values[which(vals$values==0) - 1]
inverse.rle(vals)
[1] 5 5 5 5 25 30 30
Gladwin, Philip wrote:
Hello,
What
i'm plotting time-series and label the x-axis as follows:
r - as.POSIXct(round(range(p1$time), month))
plot(p1$time,p1$ p1, type=l, xaxt=n)
axis.POSIXct(1, at=seq(r[1], r[2], by=month), format=%Y.%m)
what I want do do now, is a second label for the x-axis, that stands lower and
indicates the
Hi.
I have been trying to work with the Rdonlp2 package. There is a control
parameter called epsx that has the following description:
epsx(1e-5) - successful temination is indicated if the Kuhn-Tucker criteria
are satisfied within the value
I have tried to use the donlp2.control() function
How to calculate sorensen (bray-curtis) distance by dist function
within the vegan package?
Cheers
Duccio
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PLEASE do read the posting guide
Hi all,
I am trying to plot the results of a discriminant analysis done with
lda(MASS) but my groups appear in two different plots (in the same graphics
device) and I want to combine them in one plot. My code looks like:
BirdTrain.lda - lda(Bdisperser~., data=BirdTrain.mx)
predict(BirdTrain.lda)
Hey folks,
I'm trying to do all subsets on a zero-inflated poisson regression. I'm aware
of the leaps and regsubsets functions but I don't know if they work for ZIP
regressions or how the syntax fits in for them. Can anyone help?
The model syntax is:
zip.zc -
Read ?plot.lda, which tells you the ... arguments are (for dimen=1, the
only option for two groups) passed to ldahist, so then read its help page.
I don't know what you want (and your example is not reproducible): I would
expect you to get a single plot with two panels (figures), but there are
On Tue, 21 Aug 2007, Ryan Briscoe Runquist wrote:
Hello,
I am new and am having a hard time getting the proper syntax for output
from loops. I am working on a simulation to generate a null expectation of
bee behavior. Pieces of it work. The part that I am having specific
difficulty is
On Tue, 21 Aug 2007, Jessica Z wrote:
[snip]
I did not notice a comment on this bit in the other replies:
newdata - load (compact_d.Rdata)
summary(newdata)
Length Class Mode
1 character character
newdata is a string whose value is 'd'
try print( newdata )
ls()
On Wed, 22 Aug 2007, Alan Harrison wrote:
Hey folks,
I'm trying to do all subsets on a zero-inflated poisson regression.
I'm aware of the leaps and regsubsets functions but I don't know if they
work for ZIP regressions or how the syntax fits in for them.
They don't.
-thomas
Hi,
I am trying to integrate a function which is approximately constant
over the range of the integration. The function is as follows:
my.fcn = function(mu){
+ m = 1000
+ z = 0
+ z.mse = 0
+ for(i in 1:m){
+ z[i] = rnorm(1, mu, 1)
+ z.mse = z.mse + (z[i] - mu)^2
+ }
+ return(z.mse/m)
+ }
Hi,
I am trying to integrate a function which is approximately constant
over the range of the integration. The function is as follows:
my.fcn = function(mu){
+ m = 1000
+ z = 0
+ z.mse = 0
+ for(i in 1:m){
+ z[i] = rnorm(1, mu, 1)
+ z.mse = z.mse + (z[i] - mu)^2
+ }
+ return(z.mse/m)
+ }
On 8/22/2007 3:54 PM, Santanu Pramanik wrote:
Hi,
I am trying to integrate a function which is approximately constant
over the range of the integration. The function is as follows:
That's not a function of the input mu. It includes a random component:
my.fcn(10)
[1] 0.9786558
my.fcn(10)
Hi,
In vegan the function to calculate distance is vegdist in which the default
distance is Sorensen (Bray-Curtis).
So, try:
vegdist(x, method=bray)
Also see ?vegdist
victor
On 8/22/07, [EMAIL PROTECTED] [EMAIL PROTECTED] wrote:
How to calculate sorensen (bray-curtis) distance by dist
Thanks for trying to answer even if my question isn't very clear. Please
allow me to try again with an example:
I want to predict group membership by the three variables below, and then
plot the results in one figure that compares the frequency of scores of both
groups on the LD obtained:
Group-
Hello. I am looking for a function that will allow me to paste rows
together without regard for the numbers of columns in the datasets to
be joined. The only columns where it matters if they are aligned
correctly are at the beginning - the rest of the columns represent
differing numbers of ICD9
As Duncan Murdoch mentioned in his reply, the problem is with the fact that
your function is not really a properly defined function in the sense of
assigning a unique y to each x. The integrate function uses an adaptive
quadrature routine which probably makes multiple calls to the function
being
Hello!
When I export a dataframe to a csv-file there is always an unwanted
column added as the following demonstrates:
system(cat example.csv)
ID;Name;Value1;Value2
100;Tom;11,90;32,90
101;Martha;15,90;49,00
102;Ute;20,00;300,00
write.csv2(read.csv2 (example.csv), examplecopy.csv)
Hi Andy,
Thank your very much for your input. I also tried something like that
which gives a value close to 20, basically using the same trapezoidal
rule.
sum(apply(as.matrix(seq(-10,10,by=0.1)),1,my.fcn))*0.1
[1] 20.17385
Actually my function is much more complicated than the posted example
You can divide your domain of integration into smaller intervals and then
add up the individual contributions. This could improve the speed of
adaptive Gauss-Kronrod quadrature used in integrate().
Ravi.
---
Ravi
Hello,
I haven't been able to find an example for the second case below -- or
perhaps I didn't recognize it when I saw it.
Is there a value for x such that svalue(x) will return bbb, either by
itself or as part of an array? Or do I need to do something else
entirely?
(R2.5.1; Windows XP)
Where is the data coming from since it has a variable number of
columns in each row? Is it coming from a text file? If so, you can
use the fill=TRUE option when reading to fill out empty columns.
You need to provide at least a subset of the data so we can see what
you are working with.
On
R2.3, WinXP
Dear all,
I am using the following functions:
f1 = Phi1+(Phi2-Phi1)/(1+exp((log(Phi3)-log(x))/exp(log(Phi4)))
f2 = Phi1+(Phi2-Phi1)/(1+exp((log(Phi3)-log(r)-log(x))/exp(log(Phi4)))
subject to the residual weighting
Var(e[i]) = sigma^2 * abs( E(y) )^(2*Delta)
Here is my
Dear Evan,
englund.evan at epamail.epa.gov writes:
Hello,
I haven't been able to find an example for the second case below -- or
perhaps I didn't recognize it when I saw it.
Is there a value for x such that svalue(x) will return bbb, either by
itself or as part of an array? Or do I
hej
i'm plotting time-series and label the x-axis as follows:
r - as.POSIXct(round(range(p1$time), month))
to define the time range for labeling the xaxis
plot(p1$time,p1$ p1, type=l, xaxt=n)
plots p1 against time
axis.POSIXct(1, at=seq(r[1], r[2], by=month), format=%m)
labels the axis in
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