On Tue, 16 Aug 2005, McClatchie, Sam (PIRSA-SARDI) wrote:
> Background:
> OS: Linux Mandrake 10.1
> release: R 2.1.1
> editor: GNU Emacs 21.3.2
> front-end: ESS 5.2.3
> -
>
> Thanks to Brian Ripley (I've upgraded from source, thanks for the reminder)
> and Petr Pika
Sander Oom wrote:
> Dear all,
>
> I have a data frame containing the results of an experiment. Like this:
>
> a<-seq(1,4,by=1)
> b<-seq(1,2,by=1)
> test<-expand.grid(b,a,a)
> colnames(test)<-c("replicates","bins", "groups")
> test$abc <- rnorm(32)
> test$def <- rnorm(32)
> test$ghi <- rnorm(32)
Sander,
consider writing a function to do your plotting, then pass in the
dataframe name so... something along the lines of...
# create a function which takes two arguments
# mydf - a dataframe of a particular format... eg. the abc column is number 4
# i the column we want to aggregate and plot t
Ajay Narottam Shah mayin.org> writes:
>
> I have a data frame with one column "x":
>
> > str(data)
> `data.frame': 20 obs. of 1 variable:
> $ x: num 0.0495 0.0986 0.9662 0.7501 0.8621 ...
> Here, it looks like the operation
> data[1:10,]
> has converted it from type data frame i
I have a data frame with one column "x":
> str(data)
`data.frame': 20 obs. of 1 variable:
$ x: num 0.0495 0.0986 0.9662 0.7501 0.8621 ...
Normally, I know that the notation dataframe[indexes,] gives you a new
data frame which is the specified set of rows. But I find:
> str(data[1:10,])
num
Hi,
Does anyone know how to interpret this merge warning and whether it's critical
to fix? The merge seemed to work fine, but I am concerned.
data3<-merge(data1, data2, by="ID", all=TRUE)
Warning messages: 1: is.na() applied to non-(list or vector) in: is.na(out$h)
Error in cat(list(...), fi
Hello!
I'm trying to get an array of bytes from graphic images generated by
R. Here, you can see my Java code:
--
Process p = Runtime.getRuntime().exec("C:/Arquivos de
programas
Hellow everybody,
I have a dataframe with 468 individuals (rows) that I captured at least once
during 28 visits (columns), it looks like:
mortality[1:10,]
X18.10.2004 X20.10.2004 X22.10.2004 X24.10.2004 X26.10.2004 X28.10.2004
X30.10.2004 X01.11.2004 X03.11.2004 X07.11.2004
1
This seems like a simple problem but I can't figure it out:
I have two identical DIMENSION matrices. Both contain only binary values NOT
identical between matrices. What I want to do: If in cell (1,1) the value in
the first matrix (x) equals 1, then I keep the value in cell (1,1) in the
secon
Background:
OS: Linux Mandrake 10.1
release: R 2.1.1
editor: GNU Emacs 21.3.2
front-end: ESS 5.2.3
-
Thanks to Brian Ripley (I've upgraded from source, thanks for the reminder)
and Petr Pikal for their suggestions, but I have not made clear the form of
my data:
Bro
If all you need the formula interface for is auto deletion of NAs, I'd
suggest doing something like:
varlist <- c("fruit", "apples", "oranges", "blueberries")
fruits.nona <- na.omit(fruits.data[varlist])
model.rf <- randomForest(fruits.data[-1], fruits.data[[1]], ...)
If you want to know the cal
If you want to keep track of the function call that produced an object,
usually you need to do that inside the function that's being called, e.g.,
> test.xy <- function(x,y) {
+ xy <- x+y
+ attr(xy, "Call") <- match.call()
+ xy
+ }
> xyadd <- test.xy(x=2, y=3)
> xyadd
[1] 5
attr(,"Call
Hello. I am using R version 2.1.1 on Windows 2000.
I am using a par(mfrow=c(2,2)) statement to produce 4 plots on one screen. I
want a single horizontal legend to appear at the top of the four plots. My code
is something like this:
par(mfrow=c(2,2))
plot(x,y1)
lines(x,y2)
lines(x,y3)
plot(x,z
If you can use the `tcltk' package, Prof. John Fox had pointed this out to
me before:
dir <- tclvalue(tkchooseDirectory())
Andy
> From: Earl F. Glynn
>
> Does R have a dir.choose function?
>
> I can use file.choose like this as a kludge to get something like a
> dir.choose, but a real dir.choo
On 15-Aug-05 S.O. Nyangoma wrote:
> I have a dataset that is basically structureless. Its dimension
> varies from row to row and sep(s) are a mixture of tab and semi
> colon (;) an example is
>
HEADER1 HEADER2 HEADER3 HEADER3
A1 B1 C1 X11;X12;X13
A2 B2 C2 X21;X2
Dear Prof. Brian,
Why I need to know, because I lost my work and code which I used in my
project. Lucky I always save my work which RData file. But I forgot
which list, function, initial, etc I used.
Xiyan Lon
Prof Brian Ripley wrote:
> On Mon, 15 Aug 2005, Xiyan Lon wrote:
>
>> Dear R-Helper,
Here's one way of working with the data you gave:
> x <- read.table(file("clipboard"), fill=T, header=T)
> x
HEADER1 HEADER2 HEADER3 HEADER3.1
1 A1 B1 C1 X11;X12;X13
2 A2 B2 C2 X21;X22;X23;X24;X25
3 A3 B3 C3
4 A4 B4
Dear Tate,
Your question pertains generally to the treatment of factors in model
formulas and is not particular to polr(). For a brief explanation, see
Section 11.1, "Defining statistical models; formulae," and in particular
Section 11.1.1 on "Contrasts" in the manual An Introduction to R, which i
I have a dataset that is basically structureless. Its dimension varies
from row to row and sep(s) are a mixture of tab and semi colon (;) and
example is
HEADER1 HEADER2 HEADER3 HEADER3
A1 B1 C1 X11;X12;X13
A2 B2 C2 X21;X22;X23;X24;X25
A3 B3 C3
Does R have a dir.choose function?
I can use file.choose like this as a kludge to get something like a
dir.choose, but a real dir.choose would be better:
cat("Select one of files in directory to process:\n")
filename <- gsub("", "/", file.choose())
basepath <- dirname(filename)
Windows
On 8/15/05, Sean Davis <[EMAIL PROTECTED]> wrote:
> I have a peculiar problem that I'm sure is a simple one, but I can't figure
> out what my mistake is. Can someone enlighten me? I have a simple file,
> class.R:
>
> ##
> setClass("abc",representation(a = "character", b = "ANY"))
>
> I have a p
Did you remember to declare a dependency on package 'methods'? I suspect
not. Please see `Writing R Extensions'.
setClass is not part of base R, and those checks are being run with base
R only. I expect your package will not load when R is run with no default
packages. (Quite a few people r
On Mon, 15 Aug 2005, Xiyan Lon wrote:
> Dear R-Helper,
(There are quite a few of us.)
> I want to know how I get a list work which I saved in RData file. For
> example,
I don't understand that at all, but it looks as if you want to save an
unevaluated call, in which case see ?quote and use som
I have a peculiar problem that I'm sure is a simple one, but I can't figure
out what my mistake is. Can someone enlighten me? I have a simple file,
class.R:
##
setClass("abc",representation(a = "character", b = "ANY"))
I have a package directory ExpressCGH1 made with package.skeleton. The
pack
John,
Thank you, the document was very helpful. I can now calculate the same
values generated by predict() when I am using purely numeric input data.
Another small question arises when I look at the example using 'housing' in
the polr() documentation page:
Running the example produces the fol
Dear all,
I have a data frame containing the results of an experiment. Like this:
a<-seq(1,4,by=1)
b<-seq(1,2,by=1)
test<-expand.grid(b,a,a)
colnames(test)<-c("replicates","bins", "groups")
test$abc <- rnorm(32)
test$def <- rnorm(32)
test$ghi <- rnorm(32)
test
The following code snippet aggregat
Dear R-Helper,
I want to know how I get a list work which I saved in RData file. For
example,
> test.xy <- function(x,y) {
+xy <- x+y
+xy
+ }
>
> xyadd <- test.xy(x=2, y=3)
> xyadd
[1] 5
> x1 <- c(2,43,60,8)
> y1 <- c(91,7,5,30)
>
> xyadd1 <- test.xy(x=x1, y=y1)
> xyadd1
[1] 93
mmv wrote:
> I'm attempting to pass a string argument into the function
> randomForest but I get an error:
>
> state <- paste(list("fruit ~", "apples+oranges+blueberries",
> "data=fruits.data, mtry=2, do.trace=100, na.action=na.omit,
> keep.forest=TRUE"), sep= " ", collapse="")
I really don't u
I'm attempting to pass a string argument into the function
randomForest but I get an error:
state <- paste(list("fruit ~", "apples+oranges+blueberries",
"data=fruits.data, mtry=2, do.trace=100, na.action=na.omit,
keep.forest=TRUE"), sep= " ", collapse="")
model.rf <- randomForest(state)
Error in
On 8/13/05, Eduardo Leoni <[EMAIL PROTECTED]> wrote:
> Hi - I am doing some monte carlo simulations comparing bayesian (using
> Plummer's jags) and maximum likelihood (using lmer from package lme4
> by Bates et al).
>
> I would like to know if there is a way I can flag nonconvergence and
> excepti
Dear David, Dear Gabor , Dear All,
Many thanks for your reply and informative emails.
Actually I think it is difficult to define for example a regression model
within a SVM framework theoretically and experimentaly. What we have to do is
that we work on input data to construct model befor ente
On 8/13/05, Paul Roebuck <[EMAIL PROTECTED]> wrote:
> On Sat, 13 Aug 2005, Michael Kubovy wrote:
>
> > With Version 2.1.1 (2005-06-20) on Power Mac G5 running Mac OS X
> > 10.4.2 (8C46):
> >
> > Some compilations work (e.g., MatchIt, RGraphics, Zelig), and some
> > don't, e.g., mgcv, spatstat, a
Here is one possible and ugly hack.
mylist <- list("1"=c(a=1, b=2, c=3), "2"=c(d=4, b=5, e=6))
myvec <- unlist( mylist )
1.a 1.b 1.c 2.d 2.b 2.e
1 2 3 4 5 6
mymat <- sapply( strsplit( names(myvec) , split="\\." ) , c )
[,1] [,2] [,3] [,4] [,5] [,6]
[1,] "1"
[EMAIL PROTECTED] wrote:
> Dear R wizards:
>
> under R-2.1.0:
>
> eargs <- 3:5;
> line <- paste(c("echo A B", eargs));
> cat("executing from R: '", line, "'\n");
> system(line);
>
> Oddly, only "A" and "B" are echoed, not the eargs. I had hoped that
> line would be one string at this point, a
On 8/15/05, [EMAIL PROTECTED]
<[EMAIL PROTECTED]> wrote:
>
> Dear R wizards:
>
> under R-2.1.0:
>
> eargs <- 3:5;
> line <- paste(c("echo A B", eargs));
> cat("executing from R: '", line, "'\n");
> system(line);
>
> Oddly, only "A" and "B" are echoed, not the eargs. I had hoped that
> line wou
On Mon, 15 Aug 2005 [EMAIL PROTECTED] wrote:
>
> Dear R wizards:
>
> under R-2.1.0:
>
> eargs <- 3:5;
> line <- paste(c("echo A B", eargs));
> cat("executing from R: '", line, "'\n");
> system(line);
>
> Oddly, only "A" and "B" are echoed, not the eargs. I had hoped that
> line would be one strin
On Mon, 15 Aug 2005, Dennis Shea wrote:
> [SNIP]>>
On Sat, 13 Aug 2005, Alan Zhao wrote:
> When I have more variables than units, say a 195*10896 matrix which has
> 10896 variables and 195 samples. prcomp will give only 195 principal
> components. I checked in the help, but t
Not that I like loops, but here is a quick and dirty way of doing it:
Result <- list()
for (i in names(x)){
for (j in names(x[[i]])){
Result[[j]][[i]] <- x[[i]][[j]]
}
}
On 8/15/05, Liaw, Andy <[EMAIL PROTECTED]> wrote:
> You could try using one of the sparse representations of m
Dear R wizards:
under R-2.1.0:
eargs <- 3:5;
line <- paste(c("echo A B", eargs));
cat("executing from R: '", line, "'\n");
system(line);
Oddly, only "A" and "B" are echoed, not the eargs. I had hoped that
line would be one string at this point, and for printing this seems to
be true. Howeve
You could try using one of the sparse representations of matrices in the
SparseM or Matrix packages. Both packages have vignettes.
Andy
> From: Jan Hummel
>
> Thanks a lot! But unfortunately I will not know the
> dimensions of both lists. And further, the lists may be
> (partly) disjoint as:
> From: Dennis Shea
>
> [SNIP]>>
> >>>On Sat, 13 Aug 2005, Alan Zhao wrote:
> >>>
> When I have more variables than units, say a 195*10896
> matrix which has
> 10896 variables and 195 samples. prcomp will give only
> 195 principal
> components. I checked in the help, but there is no
You are wrong. No covariance matrix is computed. Please don't "speculate" --
read the Help file which clearly states:
"The calculation is done by a singular value decomposition of the (centered
and possibly scaled) data matrix, not by using eigen on the covariance
matrix. This is generally the pre
Thanks a lot! But unfortunately I will not know the dimensions of both lists.
And further, the lists may be (partly) disjoint as: x <- list("1"=c(a=1, b=2,
c=3), "2"=c(d=4, b=5, e=6)). And last but not least I'm really have to have
access to the names of the named list items.
The problem I dea
Please ignore this message; I apologise for the annoyance.
cheers,
Rolf
__
R-help@stat.math.ethz.ch mailing list
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide! htt
[SNIP]>>
>>>On Sat, 13 Aug 2005, Alan Zhao wrote:
>>>
When I have more variables than units, say a 195*10896 matrix which has
10896 variables and 195 samples. prcomp will give only 195 principal
components. I checked in the help, but there is no explanation that why
this happen.
[
On Mon, 15 Aug 2005, bogdan romocea wrote:
> This appears to be an SQL issue. Look for a way to speed up your
> queries in Postgresql. I presume you haven't created an index on
> 'index', which means that every time you run your SELECT, Postgresql
> is forced to do a full table scan (not good). If
I am not able to see the relation between this parameters.
Will I get the same result with
pointsize=24 and cex.axis=1
and
pointsize=12 and cex.axis=2
It seems that the fonts will be only scaled when I am changing the
pointsize after printing
and it seem that they will be drawn in a better re
To add to Brian Ripley's note:
All but possibly the first few (1-3, say) PC's are very likely random
numbers. You need to either consult references or get statistical help to
understand why. May I also suggest that you add Prof Ripley's book on
PATTERN RECOGNITION AND NEURAL NETWORKS to your read
This appears to be an SQL issue. Look for a way to speed up your
queries in Postgresql. I presume you haven't created an index on
'index', which means that every time you run your SELECT, Postgresql
is forced to do a full table scan (not good). If the index doesn't
solve the problem, look for some
On Sat, 13 Aug 2005, Prof Brian Ripley wrote:
> I suspect you want
>
> AdjForBase2 <- function (data, inds)
>
> and to refer to data[inds, 1] and data[inds, 2], but since your code is
> completely devoid of spaces and indentation, I have paid it little
> attention.
http://msr.uwaterloo.ca/msr2005/
Do you want to estimate the parameters of a lognormal distribution or
learn how to do nonlinear regression in R?
If the former, as far as I know, the best known method is maximum
likelihood, for which the answer is to compute mean and standard
deviations of the logs. This a
At 6:44 AM +0100 7/30/05, Prof Brian Ripley wrote:
>This depends on what else is going on. My guess is that you are
>running the Aqua GUI, and it is servicing the GUI which is taking
>the time, not R itself.
Actually, no, I am not using the Aqua GUI. Not even a "framework" build:
../source
On Mon, 15 Aug 2005, Adaikalavan Ramasamy wrote:
> You are right, it works fine with a different name. Its a bad habit that
> I need to shake off.
>
> The error message said that the second argument was invalid. The second
> argument in stepAIC and addterm is 'scope' and thus the title.
OK, we'll
If all vectors in the list have the same length, why not use a matrix? Then
you'd just transpose the matrix if you need to. If you really have to have
it as a list, here's one possibility:
> x <- list("1"=c(a=1, b=2, c=3), "2"=c(a=4, b=5, c=6))
> x
$"1"
a b c
1 2 3
$"2"
a b c
4 5 6
> as.lis
Hi.
Can anyone suggest a simple way to re-sort in R a list of vectors of the
following form?
input
$"1"
a b c
1 2 3
$"2"
a b c
4 5 6
Output should be something like:
"a"
"1" 1
"2" 4
"b"
"1" 2
吴 昊 wrote:
> Hi,
> I have generated a figure using rgl.surface(),how can I scratch this
> figure? thanks a lot.
Which version of rgl are you using? Current is 0.65. What does "scratch"
mean? There are functions rgl.close(), rgl.clear(), rgl.pop(). You can
also just close the window; a new one
You are right, it works fine with a different name. Its a bad habit that
I need to shake off.
The error message said that the second argument was invalid. The second
argument in stepAIC and addterm is 'scope' and thus the title.
Thank you again.
Regards, Adai
On Mon, 2005-08-15 at 15:23 +0100
In case it is unclear why in this case there is a problem: you are running
a function (here model.frame) in the stats namespace and so it looks in
the stats namespace before the workspace when looking for 'df'.
On Mon, 15 Aug 2005, Prof Brian Ripley wrote:
> Try not to use the name of an R obje
Try not to use the name of an R object ... the error is caused by using
'df' as the second argument to eval().
It works with DF in place of df.
I don;t understand your subject line: that is not the error message you
received.
On Mon, 15 Aug 2005, Adaikalavan Ramasamy wrote:
> I am trying to r
Hi Todd,
Here is a function that was suggested to me by Gabor Grothendieck. This
function counts the number of times each row of a matrix B occurs in another
matrix A.
rowmatch.count <- function(a,b) {
f <- function(...) paste(..., sep=":")
a2 <- do.call("f", as.data.frame(a))
b2 <-
Dear R-helpers,
I try to perform glm's with negative binomial distributed data.
So I use the MASS library and the commands:
model_1 = glm.nb(response ~ y1 + y2 + ...+ yi, data = data.frame)
and
predict(model_1, newdata = data.frame)
So far, I think everything should be ok.
But when I want to pe
I am trying to replicate the first example from stepAIC from the MASS
package with my own dataset but am running into error. If someone can
point where I have gone wrong, I would appreciate it very much.
Here is an example :
set.seed(1)
df <- data.frame( x1=rnorm(1000), x2=rnorm(1000), x3=rn
On Tue, Aug 09, 2005 at 07:49:36AM -0700, Thomas Lumley wrote:
> On Tue, 9 Aug 2005 [EMAIL PROTECTED] wrote:
>
> >
> > dear R wizards:
> >
> > plot( 1, 1, ylim=(2,10), xlim=(2,10), type="n");
> > rect( -1, -1, 12, 12, col=gray(0.99) );
> >
> > unfortunately wipes out the border axes around the plo
I did as you suggested by just running just R (--vanilla) and that
seemed to work. Not sure what the problem was though.
Thanks
Peter
Douglas Bates wrote:
>On 8/12/05, Peter Ho <[EMAIL PROTECTED]> wrote:
>
>
>>Hi,
>>
>>I cannot seem to get lme4 to work. I have installed the lme4 and Matrix
>
On Mon, 15 Aug 2005, McClatchie, Sam (PIRSA-SARDI) wrote:
> Background:
> OS: Linux Mandrake 10.1
> release: R 2.0.0
Time for an update.
> editor: GNU Emacs 21.3.2
> front-end: ESS 5.2.3
> -
> Colleagues
>
> I have a wind speed time series with a normal frequency
Hi Sam
It works for me:
ss<-Sys.time()
sss<-rep(ss,5)
ss<-Sys.time()
sss<-c(sss,ss)
> sss
[1] "2005-08-15 10:04:02 Střední Evropa (letní čas)" "2005-08-15
10:04:02 Střední Evropa (letní čas)"
[3] "2005-08-15 10:04:02 Střední Evropa (letní čas)" "2005-08-15
10:04:02 Střední Evropa (letní čas)"
[
On Mon, 15 Aug 2005, Prof Brian Ripley wrote:
> Probably you use the idea from unique.matrix, that is
>
> 1) form a string from each row and
> 2) call match() to see which strings match your pattern row.
If your matrix A really does have short rows like c(1,2,3) and millions of
them, another ide
Background:
OS: Linux Mandrake 10.1
release: R 2.0.0
editor: GNU Emacs 21.3.2
front-end: ESS 5.2.3
-
Colleagues
I have a wind speed time series with a normal frequency distribution and a
spike in the 5 metres/second bin. The most likely explanation is that the
inst
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