I have a question on the output generated by randomForest in classification
mode, specifically, the confusion matrix. The confusion matrix lists the
various classes and how the forest classified each one, plus the
classification error. Are these numbers essentially averages over all the
trees
Hi,
Although I set check.names to FALSE in read.table, the duplicate names get
modified. What should be done in this case?
the text file to be read by read.table
AM2 AM2 AM2 FAL
2 3 4 5
1 -1 -3 -2
t = read.table
Thanks, Mark, for the response.
The problem is vith SciViews. It is not stable under the latest version of R.
I found a solution by downloading the latest version of Tinn-R, which
communicates with the latest version of R, and now I can carry on like normal
(with both windows tiled
Peter Dalgaard a écrit :
Christophe Genolini wrote:
Hi the list,
I do not understand what change in my configuration, but Sweave add
the code \201 before each special characters é è à ç ...
Does someone know when it come from ?
MULE (multilingal environment) in Emacs used to be prone to do
Hi Jaap,
Great stuff! As the old adage went, Go well, go
Bye, Mark.
Van Wyk, Jaap wrote:
Thanks, Mark, for the response.
The problem is vith SciViews. It is not stable under the latest version of
R.
I found a solution by downloading the latest version of Tinn-R, which
communicates
Frank E Harrell Jr [EMAIL PROTECTED] [Sun, Jul 20, 2008 at 12:20:28AM CEST]:
Johannes Huesing wrote:
Because regulatory bodies demand it?
[...]
And how anyway does this
relate to predictors in a model?
Not at all; you're correct. I was mixing the topic of this discussion
up with another
Hi,
Although I set check.names to FALSE in read.table, the duplicate names get
modified. What should be done in this case?
the text file to be read by read.table
AM2 AM2 AM2 FAL
2 3 4 5
1 -1 -3 -2
t = read.table
On Sat, Jul 19, 2008 at 5:21 PM, milton ruser [EMAIL PROTECTED] wrote:
Dear all,
I have several sets of x-y-z points and I need to estimate the volume that
encompass all my points.
Recently I got some adivice to show the convex hull of my points using
geometry package (see code below).
But
R2.7.1, WinXP
Hi,
My question is probably easy to answer, but I can't seem to solve it myself.
I need to read in a large number of datasets that were generated by
another (old) software program. Each data file contains a bunch of
additional code generated by the external software. It lists
If you really want to do it, here is a way, but don't expect to be
able to reference the columns by name; this is just so it 'prints
pretty':
x - textConnection(AM2 AM2 AM2 FAL
+ 2 3 4 5
+ 1 -1 -3-2)
# read the
PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code. It
would be nice to see at least a subset of the data you are reading. I
would assume that if you are using 'read.table' to read in the data,
then there
I uploaded eha-1.2-0 to CRAN a day ago. This version can handle
accelerated failure time and proportional hazards parametric models
for right censored, left truncated, and stratified data. Included
distributions are: Weibull, lognormal, loglogistic, Gompertz, and
extreme value. The new inner
Can anyone help me with the following attempt to use an external
editor from within R
vi(file=p286.R)
Error in edit(name, file, title, editor) : unable to open file to read
edit(file=p286.R)
Error in edit(name, file, title, editor) : unable to open file to read
I have only recently
Dear R experts,
Â
I have a dataframe with 4 columns (variables). I want to redorder (or
reposition) these columns on the basis of a value in its last row. e.g.
Â
df1-data.frame( v1= c(2,3,1,9,5), v2=c(8,5,12,4,11), v3=c(7,8,2,6,9),
v4=c(1,4,6,3,6))Â
Â
df1
  v1 v2 v3 v4
1Â 2Â 8Â 7Â 1
Is this what you want:
x - read.table(textConnection( v1 v2 v3 v4
+ 1 2 8 7 1
+ 2 3 5 8 4
+ 3 1 12 2 6
+ 4 9 4 6 3
+ 5 5 11 9 6), header=TRUE)
closeAllConnections()
# order by the last row
x[, order(unlist(x[5,]), decreasing=TRUE)]
v2 v3 v4 v1
1 8 7 1 2
2 5 8 4 3
Make sure you are in the right directory; you can also use the full
path names. It is basically saying it can not find the file. Do
'list.files()' to see what is addressable in whatever directory you
are in.
On Sun, Jul 20, 2008 at 7:19 AM, David Epstein
[EMAIL PROTECTED] wrote:
Can anyone
try this:
df1 - data.frame(v1 = c(2,3,1,9,5), v2 = c(8,5,12,4,11), v3 =
c(7,8,2,6,9), v4 = c(1,4,6,3,6))
vals - unlist(df1[5, ])
df1[order(vals, decreasing = TRUE)]
I hope it helps.
Best,
Dimitris
Dimitris Rizopoulos
Biostatistical Centre
School of Public Health
Catholic University
On 20-Jul-08 11:32:14, Daniel Wagner wrote:
Dear R experts,
I have a dataframe withÂ_4 columns (variables). I want to redorder (or
reposition) these columns on the basis of a value in its last row. e.g.
df1-data.frame( v1= c(2,3,1,9,5), v2=c(8,5,12,4,11), v3=c(7,8,2,6,9),
v4=c(1,4,6,3,6))
Em Qui, 2008-07-17 às 11:47 +0200, Kunzler, Andreas escreveu:
Dear List,
I ran into some trouble by calculating differences. For me it is
important that differences are either 0 or not.
So I don't understand the outcome of this calculation
865.56-(782.86+0+63.85+18.85+0)
[1]
Thanks. The file didn't exist at the time I tried edit, and that
was my error.
David
On 20 Jul, 2008, at 12:44, jim holtman wrote:
Make sure you are in the right directory; you can also use the full
path names. It is basically saying it can not find the file. Do
'list.files()' to see what
Please excuse me for asking such basic questions:
Here is my code
y=c(1.21,0.51,0.14,1.62,-0.8,0.72,-1.71,0.84,0.02,-0.12)
ybar=mean(y)
ll=length(y);
ybarv=rep(ybar,ll)
x=1:ll
plot(x,ybarv,pch=1)
segments(x[1],ybar,x[ll],ybar)
What I get is a collection of small circles, with a segment on top
On Sun, Jul 20, 2008 at 1:44 PM, David Epstein
[EMAIL PROTECTED] wrote:
Please excuse me for asking such basic questions:
Here is my code
y=c(1.21,0.51,0.14,1.62,-0.8,0.72,-1.71,0.84,0.02,-0.12)
ybar=mean(y)
ll=length(y);
ybarv=rep(ybar,ll)
x=1:ll
plot(x,ybarv,pch=1)
Johannes Huesing wrote:
Frank E Harrell Jr [EMAIL PROTECTED] [Sun, Jul 20, 2008 at 12:20:28AM CEST]:
Johannes Huesing wrote:
Because regulatory bodies demand it?
[...]
And how anyway does this
relate to predictors in a model?
Not at all; you're correct. I was mixing the topic of this
On Sun, 20 Jul 2008, Uwe Ligges wrote:
You probably want to make your code readable, read ?points and go ahead by
making the plot without points (plot(., type=n)), drawing segments and
at the end paint points with white background colour in order to overwrite
the segments:
Except that
What I don't like about type=b, also suggested by Paul Smith, is
that the segments do not go right up to the little circles---a gap is
left, which I don't like. So far, Uwes' solution is what suits me
best. However, I understand Brian's objection, though it doesn't
apply in my case. The
Roger Leenders r.t.a.j.leenders at rug.nl writes:
After the data for the final respondent, the file contains a , followed
by some zeroes. R now needs to read the data until the symbol.
The symbol is not readable in my viewer, but try the following: put it into the
clipboard, and paste it
Are you aware that there are many different kinds of splines?
With spline and splinefun, you can use method = fmm (Forsyth,
Malcolm and Moler), natural, or periodic. I'm not familiar with
fmm, but it seems to be adequately explained by the Manual spline
evaluation you quoted from the
Jinsong Zhao jszhao at mail.hzau.edu.cn writes:
Hi,
Is there a function to do principal factor analysis in R?
Do a 'RSiteSearch(factor analysis)' and you will find several packages for
Factor Analysis, such as:
FAiRFactor Analysis in R
FactoMineR Factor Analysis and Data
On 20/07/2008 11:11 AM, Spencer Graves wrote:
Are you aware that there are many different kinds of splines?
With spline and splinefun, you can use method = fmm (Forsyth,
Malcolm and Moler), natural, or periodic. I'm not familiar with
fmm, but it seems to be adequately explained by the
Does anyone know of good reading material about the following? The R language
definition does not appear to explicitly address my problem (maybe I misread
that document?)
I have a function definition:
func(a)
cat(Anova for variable ,a)
What I wish to achieve is to call func with a value such
Installing of Joomla! 1.5 is pretty easy. We assume you have set-up
your Web site, and it is accessible with your browser.
Download Joomla! 1.5, unzip it and upload/copy the files into the
directory you Web site points to, fire up your browser and enter your
Web site address and the installation
in line
Duncan Murdoch wrote:
On 20/07/2008 11:11 AM, Spencer Graves wrote:
Are you aware that there are many different kinds of splines?
With spline and splinefun, you can use method = fmm (Forsyth,
Malcolm and Moler), natural, or periodic. I'm not familiar with
fmm, but it seems
See ?deparse . E.g. (with several stylistic improvements)
func - function(a)
cat(sprintf(Anova for variable %s\n,
sQuote(deparse(substitute(a)
func(Age)
Note that you expliciltly do not want the *vaiue* of 'a', but the symbol
passed. That is non-standard behaviour, and you
on 07/20/2008 08:42 AM willemf wrote:
Does anyone know of good reading material about the following? The R language
definition does not appear to explicitly address my problem (maybe I misread
that document?)
I have a function definition:
func(a)
cat(Anova for variable ,a)
What I wish to
Hello All!
I like to do some indicator kriging with R.
So far I used geoR for simple and ordinary kriging.
Does anybody know which package I should use?
Thanks for your help!
Sascha!
--
Jetzt dabei sein: http://www.shortview.de/[EMAIL PROTECTED]
__
Hi - I'd like to have the area between 2 lines on a x-y plot be filled with
grey, but I haven't had
any luck using polygon or rect. (In reality, I'd like to do this for twice
- once for a low group and once for a high group - and then I'd like to plot
a set of data points for a 'normal' group
Hi All...
I can¹t seem to find an answer to this in the help pages, archives, or
Deepayan¹s Lattice Book.
I want to do a Lattice plot, and then update it, possibly more than once,
depending upon some logical options. Code below; it produces a second plot
page when the second update is called,
Dear all,
I have just installed the new version of R 2.7.1 and when i first
instaled some packages it asked me to create a personal directory.
It installed the packages, but not the html help page (packages.html)
The downloaded packages are in
try the following:
age - 1:10
y.low - rnorm(length(age), 150, 25) + 10*age
y.high - rnorm(length(age), 250, 25) + 10*age
plot(age,y.high,type = 'n', ylim = c(100, 400),
ylab = 'Y Range', xlab = 'Age (years)')
lines(age, y.low, col = 'grey')
lines(age, y.high, col = 'grey')
polygon(c(age,
on 07/20/2008 11:34 AM David Freedman wrote:
Hi - I'd like to have the area between 2 lines on a x-y plot be filled with
grey, but I haven't had
any luck using polygon or rect. (In reality, I'd like to do this for twice
- once for a low group and once for a high group - and then I'd like to
Try this:
library(lattice)
fancy.lm - function(x, y, fit = TRUE, resid = TRUE){
model - lm(y ~ x)
y.pred - predict(model) # Compute residuals for plotting
res.x - as.vector(rbind(x, x, rep(NA,length(x # NAs induce breaks
in line
res.y - as.vector(rbind(y,
José Augusto Jr. wrote:
Dear all,
I have just installed the new version of R 2.7.1 and when i first
instaled some packages it asked me to create a personal directory.
It installed the packages, but not the html help page (packages.html)
The downloaded packages are in
Read the VISTA HOW TO section of this page:
http://batchfiles.googlecode.com
On Sun, Jul 20, 2008 at 12:48 PM, José Augusto Jr. [EMAIL PROTECTED] wrote:
Dear all,
I have just installed the new version of R 2.7.1 and when i first
instaled some packages it asked me to create a personal
Dear all,
Unfortunately, i´m running as administrator. So, i cannot run R in an
upper level than this one i am already running.
jamaj
2008/7/20 Gabor Grothendieck [EMAIL PROTECTED]:
Read the VISTA HOW TO section of this page:
http://batchfiles.googlecode.com
On Sun, Jul 20, 2008 at 12:48
Hmm, I'm having a fair few difficulties using 'merge' now. I managed to get it
to work successfully before, but in this case I'm trying to shorten (as oppose
to lengthen as before) a file in relation to a 'master' file.
These are the commands I've been using, followed by the dimensions of the
#See David Williams' book Weighing the odds, p286
y - c(1.21, 0.51, 0.14, 1.62, -0.8,
0.72, -1.71, 0.84, 0.02, -0.12)
ybar - mean(y)
ylength - length(y)
ybarv - rep(ybar, ylength)
x - 1:ylength
plot(x,y,asp=1,xlab=position,ylab=ybar,type=n,ylim=c(-1,1))
segments(x[1], ybar, x[ylength],
Just in case you are mistaken try the suggestion given already.
If you determine that that does not work (and are not just guessing
that it won't work) then in Windows Explorer,
right click packages.html Properties Security
and set the security levels appropriately. Not sure but you
may have
Pursuant to a prior on topic thread (http://tolstoy.newcastle.edu.au/R/e4/help/08/07/17192.html
) where I found I could not use AOV to perform an anova on my large
data set, I'm now trying to code the analysis by hand so to speak.
However, as demonstrated below, when comparing my attempt to
Dear Mike and Brian,
Thank you very much, this solves my immediate problem. Thanks for your time
very much. I will do the reading on those two functions.
I have looked for books that deal with the more programmatic aspects of R
instead of the statistical side (e.g. dealing with R objects,
Please,
I have a 2GB computer and a huge time-series to embedd, and i tried
increasing memory.limit() and memory.size(max=TRUE), but nothing.
Just before the command:
memory.size(max=TRUE)
[1] 13.4375
memory.limit()
[1] 1535.875
gc()
used (Mb) gc trigger (Mb) max used (Mb)
Ncells
Please have a look at the 'Rdonlp2' package at http://arumat.net/Rdonlp2/.
It provides non-linear optinization with nonlinear constraints, so it may be
exactly what you are looking for.
Whether this algorithm is powerful enough for your task has to be seen.
There are examples on the Web page
Dear all, is there a R function that enumerate a partition of a vector of size
n? (of course for n not very large).
I would like enumerate all the (2 power n)-1 sub-sets. (2 power n)-1 since (2
power n) includes de empty subset.
Best Regards.
ps. It is not a homework. I never posted homework
Check out S Programming by Venables Ripley.
On Sun, Jul 20, 2008 at 3:02 PM, willemf [EMAIL PROTECTED] wrote:
Dear Mike and Brian,
Thank you very much, this solves my immediate problem. Thanks for your time
very much. I will do the reading on those two functions.
I have looked for books
On 21/07/2008, at 5:27 AM, David Epstein wrote:
#See David Williams' book Weighing the odds, p286
y - c(1.21, 0.51, 0.14, 1.62, -0.8,
0.72, -1.71, 0.84, 0.02, -0.12)
ybar - mean(y)
ylength - length(y)
ybarv - rep(ybar, ylength)
x - 1:ylength
What is huge? How big is it and what are the commands you are trying
to use? Have you tried a smaller size to see how much memory is being
used (do a 'gc' before and after). Depending on what you are trying
to do, you may have memory fragmented. What are the sizes of all the
other objects that
lamack lamack wrote:
Dear all, is there a R function that enumerate a partition of a vector of size
n? (of course for n not very large).
I would like enumerate all the (2 power n)-1 sub-sets. (2 power n)-1 since (2
power n) includes de empty subset.
Best Regards.
ps. It is not a homework. I
Can you give a small example of what you data looks like and what you
think the output should be. Have you looked at 'combn'?
On Sun, Jul 20, 2008 at 4:33 PM, lamack lamack [EMAIL PROTECTED] wrote:
Dear all, is there a R function that enumerate a partition of a vector of
size n? (of course
Try this replacing letters[1:4] with your set:
do.call(expand.grid, as.data.frame(rbind(letters[1:4], NA)))
V1 V2 V3 V4
1 abcd
2 NAbcd
3 a NAcd
4 NA NAcd
5 ab NAd
6 NAb NAd
7 a NA NAd
8 NA NA NAd
9
Try lattice:
library(lattice)
xyplot(y ~ x, ylim = c(0.5, 0.7), aspect = iso)
On Sun, Jul 20, 2008 at 5:58 PM, David Epstein
[EMAIL PROTECTED] wrote:
On 20 Jul, 2008, at 22:00, Rolf Turner wrote:
I just tried
set.seed(42)
x - runif(10)
y - runif(10)
Take a look at eqscplot() in package MASS for a different approach.
You last para forgets that once you have set the device region and the
margins the physical plot region and hence its aspect ratio is determined
-- see the figures in 'An Introduction to R'.
On Sun, 20 Jul 2008, David
On Sun, Jul 20, 2008 at 11:14 PM, Gabor Grothendieck
[EMAIL PROTECTED] wrote:
Try lattice:
library(lattice)
xyplot(y ~ x, ylim = c(0.5, 0.7), aspect = iso)
Alternatively,
set.seed(42)
x - runif(10)
y - runif(10)
plot(x[(y=0.5) (y=0.7)],y[(y=0.5) (y=0.7)],ylim=c(0.5,0.7),asp=1)
Paul
Hi,
I am trying to calculate the sum for each occurrence of the level of a factor
in a very large matrix. In addition, I want to save that sum together with the
information of the level of the factor and the level of a second factor.
My matrix looks like this:
Dear R-list members,
This is in fact a question about statistics, not directly
about the R software.
The coin package, for conditional inference through permutation
methods, has as it main function the function independence_test.
One of its parameters is teststat, about which the package
On Sun, Jul 20, 2008 at 4:16 PM, Ralph S. [EMAIL PROTECTED] wrote:
Hi,
I am trying to calculate the sum for each occurrence of the level of a factor
in a very large matrix. In addition, I want to save that sum together with
the information of the level of the factor and the level of a
On Sun, Jul 20, 2008 at 4:47 PM, hadley wickham [EMAIL PROTECTED] wrote:
On Sun, Jul 20, 2008 at 4:16 PM, Ralph S. [EMAIL PROTECTED] wrote:
Hi,
I am trying to calculate the sum for each occurrence of the level of a
factor in a very large matrix. In addition, I want to save that sum together
Hi
[EMAIL PROTECTED] wrote:
Hello,
After usefull suggestions by Paul Murrell, i have been trying to use
my.symbols to plot arrows of varying angles on my plot in order to create
a time series of wind direction... however,i have been unable to figure
out how the allignment of symbols
Here are a couple of options:
(i) use the 'gridBase' package and do these arrow annotations using the
'grid' package, which allows you to control coordinate systems in a more
rational manner. There's an example (perhaps slightly more complicated
than you need) in:
Actually that was my next question. From the books that I have I see a natural
spline and a clamped spline. I am assuming that natural (Umerical Analysis,
Burden, et. all.) cooresponds to 'R''s natural method. I am not clear on what
a clamped spline cooresponds to (fmm or perodic). Or what the
Still playing with Lattice...
I want to use panel.text(x, y etc) but with x and y in plot coordinates
(0,1), not user coordinates.
I think if I had this problem with traditional graphics, I could use
grconvertX to make the change. I did come across convertX {grid} but this
doesn't seem to be
On Sun, Jul 20, 2008 at 6:03 PM, Bryan Hanson [EMAIL PROTECTED] wrote:
Still playing with Lattice...
I want to use panel.text(x, y etc) but with x and y in plot coordinates
(0,1), not user coordinates.
I think if I had this problem with traditional graphics, I could use
grconvertX to make
Does this do what you want:
# following up on another idea that was presented
# where are the breaks
dataBreaks - cumsum(c(0, (diff(x[, 2] + x[, 1] * max(x[, 2])) != 0)))
# sum up column 3 and output the first two columns with the indices
result - lapply(split(seq(nrow(x)), dataBreaks),
Never mind, I just hard-coded it using ratios. Simpler than I thought.
Thanks, Bryan
On 7/20/08 9:03 PM, Bryan Hanson [EMAIL PROTECTED] wrote:
Still playing with Lattice...
I want to use panel.text(x, y etc) but with x and y in plot coordinates
(0,1), not user coordinates.
I think if I
yes - thank you very much! slowly getting to the full power of R . . .
Date: Sun, 20 Jul 2008 21:21:35 -0400
From: [EMAIL PROTECTED]
To: [EMAIL PROTECTED]
Subject: Re: [R] Sum efficiently from large matrix according to re-occuring
levels of factor?
Use grid.text instead:
library(lattice)
library(grid)
xyplot(demand ~ Time, BOD, panel = function(...) {
panel.xyplot(...)
grid.text(Some text, .1, .1) # near lower left
})
On Sun, Jul 20, 2008 at 9:03 PM, Bryan Hanson [EMAIL PROTECTED] wrote:
Still playing with Lattice...
I want to
Hi,
I'm trying to use RODBC without having to set up a DSN, using hte
direct connection string in odbcDriverConnect. My connection attempt
looks something like:
odbcDriverConnect(connection =
SERVER=localhost;DRIVER={/usr/lib/odbc/libmyodbc.so};DATABASE=myDB;UID=reader;PASSWORD=insecure;)
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