Re: [R] Fwd: R-Help
Why do you repost this request to R-help? I already pointed you to the package maintainer! Uwe Ligges amna khan wrote: -- Forwarded message -- From: amna khan [EMAIL PROTECTED] Date: Dec 6, 2006 10:28 PM Subject: R-Help To: [EMAIL PROTECTED] Respected Sir I am a very new user of R. I want to ask a question about the nortest package. In this package how we can write the code of ad.test, cvm.test, ks.test for other distributions like GEV, GPA etc. I request you to please guide to me. Kind Regards AMNA __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] Splitting a dataframe at the results of tapply
try this:
dat - data.frame(Id, Noise, Height)
##
dat - dat[order(dat$Id), ]
ind - unlist(tapply(dat$Noise, dat$Id, function(x) x == max(x)))
dat[ind, ]
dat[!ind, ]
I hope it helps.
Best,
Dimitris
Dimitris Rizopoulos
Ph.D. Student
Biostatistical Centre
School of Public Health
Catholic University of Leuven
Address: Kapucijnenvoer 35, Leuven, Belgium
Tel: +32/(0)16/336899
Fax: +32/(0)16/337015
Web: http://med.kuleuven.be/biostat/
http://www.student.kuleuven.be/~m0390867/dimitris.htm
- Original Message -
From: E. Gordijn [EMAIL PROTECTED]
To: r-help@stat.math.ethz.ch
Sent: Thursday, December 07, 2006 8:48 AM
Subject: [R] Splitting a dataframe at the results of tapply
I have got a dataframe containing measurement of aircraft noise like
this:
Id - c(1,4,5,2,3,6,4,1,2,5,6,3)
Noise - c(88,94,97,98,92,56,103,102,87,95,92,97)
Height - c(190, 150, 120, 115, 188, 104, 101, 189, 146, 111, 124,
126)
df - data.frame(Id, Noise, Height)
Now I would like to split this in two new dataframes. The first one
containing the rows with the maximum Noise for each Id and in the
second
the other rows.
I manage to find that maximum Noise levels...
m - tapply(df$Noise, Id.factor, max)
m
1 2 3 4 5 6
102 98 97 103 97 92
But how do I split my dataframe?
--
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Business Area Aviation (A/CAP/EC)
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Re: [R] Heteroscedasticity consistent standard errors for Spatial error models
On Thu, 7 Dec 2006, Achim Zeileis wrote: On Thu, 7 Dec 2006, Samarasinghe, Oshadhi Erandika wrote: Hello, Could anyone please tell me how to estimate Heteroscedasticity Consistent standard errors for a Spatial error model? All the functions I have looked at only works for lm objects. I assume that you looked also at the sandwich package: The methods there do not only work for lm objects but are object-oriented, appropriate methods are already provided for a range of different object classes. So, in principle, you can plug in other models as well, potentially including spatial models if appropriate methods are provided. See vignette(sandwich-OOP, package = sandwich) Disclaimer: I'm not sure whether the spatial structure of spatial models will be appropriately captured by the class of estimators implemented in sandwich. But someone who knows spatial models and their HC covariances should be able to figure that out from the vignette above. I'm also not sure what specialized methods exist... Typically, the use of HC covariances with these kinds of models is an inappropriate fix for missing variables and possibly also wrong functional forms. Some supervisors want them, but in practice fitting a better specified model is superior. It is also possible to sample from the fitted model - I've been looking at MH sampling from MCMCpack - and that I feel is a way to go if the model is badly specified and you can't do anything about it. Settings where natural experiments exist are also very helpful, with shifts in coefficient values and/or standard errors indicating whether the hypothesised cause of difference actually had an effect. It can probably be done, and some journals/referees/supervisors etc. want HC covariances, but I'm afraid that doesn't necessarily mean that they are any use in practice with these pretty rough kinds of models. Roger Best, Z Thank you very much! - Oshadhi __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. -- Roger Bivand Economic Geography Section, Department of Economics, Norwegian School of Economics and Business Administration, Helleveien 30, N-5045 Bergen, Norway. voice: +47 55 95 93 55; fax +47 55 95 95 43 e-mail: [EMAIL PROTECTED] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
[R] Simulation in R
Dear Alexender !
In the instruction
stichproben[i] - samp_i ,
samp_i is a vector while stichproben[i] is vector element
It can be better to consider stichproben as a list at beginning e.g
stichproben-list(0,0)
stichproben[[i]]-samp_i will work
This instruction is
ix - sample(n,200) is also incorrect because n length is equal to 1 and you
want to extract 200 elements
ix - ifelse(n=200,sample(1:n, 200),n)
Justin BEM
Elève Ingénieur Statisticien Economiste
BP 294 Yaoundé.
Tél (00237)9597295.
- Message d'origine
De : Alexander Geisler [EMAIL PROTECTED]
À : r-help@stat.math.ethz.ch
Envoyé le : Jeudi, 7 Décembre 2006, 1h20mn 49s
Objet : [R] Simulation in R
Hello!
I have the following problem.
My code:
--snip--
ergebnisse - rep(0, each=2)
stichproben - rep(0, each=2)
for (i in seq(1:2)) {
n - dim(daten)[1]
ix - sample(n,200) # producing samples
samp_i - daten[ix,]
stichproben[i] - samp_i # doesnt works
# Calculation of the model:
posterior_i - MCMClogit(y ~ fbl.ind + fekq3 + febitda4 + fuvs + fkru +
fzd + fur3, data=samp_i, b0=prior, B0=precision, tune=0.5) # calculation
ergebnisse[i] - summary(posterior_i) # saving the results (works)
}
--snip--
I have a data set called daten. I produce samples of the size 200. The
samples are saved in samp_i.
Question:
How is the easiest way to save this samples. My code doesn't work, only
the first column of the sample samp_i is in stichproben[i]. I understand
why.
My idea is to define a array stichproben and then save a matrix in the
particular fields of the array. But things like
y - matrix(c(samp_1),nrow=200, ncol=8)
and then saving y in the array stichproben doesn't work.
How is it possible to define a matrix with the content of my samples
(samp_i) and but them into an array stichproben?
Or is there an easier way?
With kind regards
Alex
--
Alexander Geisler * Kaltenbach 151 * A-6272 Kaltenbach
email: [EMAIL PROTECTED] | [EMAIL PROTECTED]
phone: +43 650 / 811 61 90 | skpye: al1405ex
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Découvrez une nouvelle façon d'obtenir des réponses à toutes vos questions !
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Re: [R] errors when setting up R2.4.0-win32.exe
zhijie zhang wrote: Dear Ruser, Today, i download R2.4.0-win32.exe, but can't set it up successfully. The error informaiton is : *0x38e4memory quoted by ox6c7f22b3 can't be readonly.* My operating system in WindowXP. Where goes wrong? Thanks. If your computer is speaking Chinese, then this may be due to a bug that was fixed in R-patched. At this point in time, you might as well try out the test build of 2.4.1 beta, at http://cran.r-project.org/bin/windows/base/rtest.html __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] beginning my R-learning
At 22:16 04/12/2006, Michael McCulloch wrote:
Hello,
I'm just beginning to learn R. What books/online learning modules
with datasets would you suggest?
Thank you!
If
a) you already know some statistics
b) you want to use R as a tool in your applied statistical work
then
@BOOK{venables02,
author = {Venables, W N and Ripley, B D},
year = 2002,
title = {Modern applied statistics with {S}},
publisher = {Springer-Verlag},
address = {New York},
keywords = {statistics, general, software}
}
is worth considering. It is quite terse though (it is one of the few
books I have which I wish were longer) and not so suitable if you are
also learning statistics at the same time.
Best wishes,
Michael
Michael McCulloch
Pine Street Clinic
Pine Street Foundation
124 Pine Street, San Anselmo, CA 94960-2674
tel 415.407.1357
fax 415.485.1065
email: [EMAIL PROTECTED]
web:www.pinest.org
www.pinestreetfoundation.org
www.medepi.net/meta
Michael Dewey
http://www.aghmed.fsnet.co.uk
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[R] Betr.: Re: Splitting a dataframe at the results of tapply
Hi Dimitris,
This works fine.
Thanks!, Ed
--
--
Ed Gordijn
Adviseur geluidscapaciteit
Amsterdam Airport Schiphol
Business Area Aviation (A/CAP/EC)
Postbus 7501, 1118 ZG Schiphol
Bezoekadres: Evert v/d Beekstraat 202, 1118 CP Schiphol
tel 020 601 32 22
fax 020 601 21 34
e-mail [EMAIL PROTECTED]
meer informatie is te vinden op www.schiphol.nl
--
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[R] POSIX and summer savings time redux
When I tried Professor Ripley's example (below), the tz argument failed to adjust clock time from UTC. (z - ISOdatetime(1970,1,1,0,0,0, tz=UTC)+1165398135729/1000) [1] 2006-12-06 09:42:15 UTC format(z, %Y-%m-%d %H:%M:%OS3,tz = CET) [1] 2006-12-06 09:42:15.729 # expected CET (Central European Time) clock time is UTC + 1 hour time zone adjustment Am I running into platform dependencies? (my platform) platform i386-pc-mingw32 arch i386 os mingw32 system i386, mingw32 status major 2 minor 4.0 year 2006 month 10 day03 svn rev39566 language R version.string R version 2.4.0 (2006-10-03) Thank you most sincerely, Derek Eder Prof Brian Ripley wrote: On Wed, 6 Dec 2006, Derek Eder wrote: I have a time stamp in UTC (GMT) time: format(ISOdatetime(1970,1,1,0,0,0)+1165398135729/1000,%Y-%m-%d %H:%M:%OS3) 2006-12-06 09:42:18.823 (note millisecond accuracy, but not relevant to question here) But it is the wrong answer, and not what my system gives. Now, this time stamp actually happened at local (Swedish) time one hour later (10:42). So you need to tell R that it was in UTC, which is what the 'tz' argument is for: (z - ISOdatetime(1970,1,1,0,0,0, tz=UTC)+1165398135729/1000) [1] 2006-12-06 09:42:15 UTC format(z, %Y-%m-%d %H:%M:%OS3, tz=CET) [1] 2006-12-06 10:42:15.729 Regarding summer/winter adjustments in time (spring forward, fall back): Is there a way of automatically recovering the local time adjustments for a given date? E.g., a date/time in springtime = GMT +2 , else GMT +1 Is the above not enough? You can unpick it if you want to get the shift. -- Derek N. Eder Gothenburg University VINKLA - Vigilance and Neurocognition laboratory SU/Sahlgrenska Utvecklingslab 1, Med Gröna stråket 8 SE 413 45 Göteborg (Gothenburg) Sverige (Sweden) +46 (031)* 342 8261 (28261 inom Sahlgrenska) +46 0704 915 714 (mobile) +46 (031) 25 97 07 (home) * omit the 0 when calling from outside Sweden __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] POSIX and summer savings time redux
CET is not a valid timezone *on Windows*: please do RTFM. E.g. ?Sys.timezone says 'Sys.timezone' returns an OS-specific character string, possibly an empty string. It may be possible to set the timezone via the environment variable 'TZ': see 'as.POSIXlt'. Windows is notorious for naming its timezones differently from the official names. and ?as.POSIXlt points you at a specification of the form 'GST-1GDT', which seems to be the same as CET, and that works on my Windows laptop. It is also possible that tz= works for you: it seems to for me when I set my machine to CET. On Thu, 7 Dec 2006, Derek Eder wrote: When I tried Professor Ripley's example (below), the tz argument failed to adjust clock time from UTC. (z - ISOdatetime(1970,1,1,0,0,0, tz=UTC)+1165398135729/1000) [1] 2006-12-06 09:42:15 UTC format(z, %Y-%m-%d %H:%M:%OS3,tz = CET) [1] 2006-12-06 09:42:15.729 # expected CET (Central European Time) clock time is UTC + 1 hour time zone adjustment Am I running into platform dependencies? (my platform) platform i386-pc-mingw32 arch i386 os mingw32 system i386, mingw32 status major 2 minor 4.0 year 2006 month 10 day03 svn rev39566 language R version.string R version 2.4.0 (2006-10-03) Thank you most sincerely, Derek Eder Prof Brian Ripley wrote: On Wed, 6 Dec 2006, Derek Eder wrote: I have a time stamp in UTC (GMT) time: format(ISOdatetime(1970,1,1,0,0,0)+1165398135729/1000,%Y-%m-%d %H:%M:%OS3) 2006-12-06 09:42:18.823 (note millisecond accuracy, but not relevant to question here) But it is the wrong answer, and not what my system gives. Now, this time stamp actually happened at local (Swedish) time one hour later (10:42). So you need to tell R that it was in UTC, which is what the 'tz' argument is for: (z - ISOdatetime(1970,1,1,0,0,0, tz=UTC)+1165398135729/1000) [1] 2006-12-06 09:42:15 UTC format(z, %Y-%m-%d %H:%M:%OS3, tz=CET) [1] 2006-12-06 10:42:15.729 Regarding summer/winter adjustments in time (spring forward, fall back): Is there a way of automatically recovering the local time adjustments for a given date? E.g., a date/time in springtime = GMT +2 , else GMT +1 Is the above not enough? You can unpick it if you want to get the shift. -- Brian D. Ripley, [EMAIL PROTECTED] Professor of Applied Statistics, http://www.stats.ox.ac.uk/~ripley/ University of Oxford, Tel: +44 1865 272861 (self) 1 South Parks Road, +44 1865 272866 (PA) Oxford OX1 3TG, UKFax: +44 1865 272595 __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] barplot - how to force vertical axis to cover entire plot area
Etienne wrote: I'm using barplot with the following call: barplot(stat_data[[5]][,],axes=TRUE,axisnames=TRUE,axis.lty=1,xlab=xlab,ylab=ylab,beside=TRUE,las=1,font.lab=2,font.axis=1,legend.text=TRUE) The example is not reproducible and poorly formatted. Please read the posting guide. On some data, the vertical axis does not cover the whole plot area and the last tick mark is smaller than the maximum value. I tried setting the ylim values but even with that, some plots are still not OK, it just shrinks the length of the bars. R tries to make the plot pretty, i.e. stop with some tick mark like 200, but not e.g. 242. Perhaps you want to make a box() around the plot? Uwe Ligges Attached is a png example of the problem. I hope it gets through. Thanks, Etienne __ __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] lmer, p-values and all that
Hello, I've just located the illuminating explanation by Douglas Bates on degrees of freedom in mixed models. The take-home message appears to be: don't trust the p-values from lme. Questions: Should I give up hypothesis testing for fixed effects terms in mixed models? Has my time spent reading Pinheiro Bates been in vain? Is there a publication on this issue? Thanks, Dan Bebber Department of Plant Sciences University of Oxford __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] change factor level 1,2,3 to red,blue,dark
Aimin Yan wrote: I am new to R. Maybe this is very simple question. I have a dataframe, there is column that is factor. This factor has three level that 1,2,3. Now I want to change these level(1,2,3) to level(red,blue,dark). Does anybody how to do this job? levels(dataframe$column) - c(red, blue, dark) Uwe Ligges Thank you very much Aimin __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] change factor level 1,2,3 to red,blue,dark
Aimin Yan aiminy at iastate.edu writes: I am new to R. Maybe this is very simple question. I have a dataframe, there is column that is factor. This factor has three level that 1,2,3. Now I want to change these level(1,2,3) to level(red,blue,dark). Does anybody how to do this job? levels() help page has entry about this. Try x - factor(round(runif(n=10, min=1, max=3))) x [1] 3 1 1 3 1 2 2 2 1 2 Levels: 1 2 3 levels(x) - list(red=c(1), blue=c(2), dark=c(3)) x [1] dark red red dark red blue blue blue red blue Levels: red blue dark You have factor in data.frame, so you have to use levels(myDF$x) - ... Gregor __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
[R] Calculating distance given coordinates
Given the following data (see below) on nest locations (fid.albers = 149, 148, etc.), I need to (a) calculate the distance between all fid pairs, and (b) flag all nests within an user-specified radius. What syntax will accomplish both tasks? If it helps, I have the nest locations as eastings and northings as well but thought better of estimating distance by calculating the root of the hypotenuse between all nest pairs. x.albers y.albers fid.albers [1,] 723557 671748149 [2,] 723384 671867148 [3,] 723375 671757147 [4,] 723363 671824146 best Ani Anirudh V. S. Ruhil, Ph.D. Sr. Research Associate Voinovich Center for Leadership and Public Affairs Ohio University Building 21, The Ridges Athens, OH 45701-2979 Tel: 740.597.1949 | Fax: 740.597.3057 __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
[R] Taguchi Design
Dear R Users, If it is possible, i would like to learn whether a R package that can be used for Taguchi design is available. Sincerely -- Ýbrahim Mutlay [[alternative HTML version deleted]] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] incidence and adjacency matrix conversion
Thanks, David. I tried converting my rectangular matrix to a network object and then back to a square matrix. This works for a small artificial dataset (e.g. 2x5), but when I try this on my 1790x45 or transposed 45x1790 matrix, R keeps working for a couple of minutes and then crashes completely without having saved any data first. I assume something is wrong with my data? Cheers Philip David Barron wrote: I think you can do this using the network package. Look at the as.network.matrix and as.matrix.network functions, for example. how can I convert an m x n incidence matrix into an m x m adjacency matrix or an n x n adjacency matrix? The current matrix contains binary data, hence the new matrix would contain counts of common occurrences. __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] Taguchi Design
2006/12/7, Chuck Cleland [EMAIL PROTECTED]: Ýbrahim Mutlay wrote: Dear R Users, If it is possible, i would like to learn whether a R package that can be used for Taguchi design is available. Ibrahim: Have you considered functions in the AlgDesign package? http://cran.us.r-project.org/doc/packages/AlgDesign.pdf http://tolstoy.newcastle.edu.au/R/help/04/02/0217.html hope this helps, Chuck Sincerely __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. -- Chuck Cleland, Ph.D. NDRI, Inc. 71 West 23rd Street, 8th floor New York, NY 10010 tel: (212) 845-4495 (Tu, Th) tel: (732) 512-0171 (M, W, F) fax: (917) 438-0894 I must thank you for your advise, i will see it. -- Ýbrahim Mutlay [[alternative HTML version deleted]] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
[R] Help to understand an Error using summary to an mcmc object
Hi, I used the MCMCirtKd function of MCMCpack: posterior2 - MCMCirtKd(data, dimensions = 2, +burnin = 5000, mcmc = 5, thin = 10, + verbose = 1, B0 = .25, store.item = TRUE, item.constraints = beta.constraints) And after apply the comand summary() I got some erros and warnings that I could not understand: summary.posterior2 - summary(posterior2) Error: NA/NaN/Inf in foreign function call (arg 1) In addition: Warning messages: 1: algorithm did not converge in: glm.fit(x = X, y = Y, weights = weights, start = start, etastart = etastart, 2: step size truncated due to divergence Error: NA/NaN/Inf in foreign function call (arg 1) In addition: There were 42 warnings (use warnings() to see them) Error: NA/NaN/Inf in foreign function call (arg 1) In addition: There were 35 warnings (use warnings() to see them) Error in glm.fit(x = X, y = Y, weights = weights, start = start, etastart = etastart, : inner loop 1; cannot correct step size In addition: There were 49 warnings (use warnings() to see them) Error: NA/NaN/Inf in foreign function call (arg 1) In addition: Warning messages: 1: algorithm did not converge in: glm.fit(x = X, y = Y, weights = weights, start = start, etastart = etastart, 2: algorithm did not converge in: glm.fit(x = X, y = Y, weights = weights, start = start, etastart = etastart, 3: algorithm did not converge in: glm.fit(x = X, y = Y, weights = weights, start = start, etastart = etastart, 4: algorithm did not converge in: glm.fit(x = X, y = Y, weights = weights, start = start, etastart = etastart, 5: algorithm did not converge in: glm.fit(x = X, y = Y, weights = weights, start = start, etastart = etastart, 6: algorithm did not converge in: glm.fit(x = X, y = Y, weights = weights, start = start, etastart = etastart, 7: algorithm did not converge in: glm.fit(x = X, y = Y, weights = weights, start = start, etastart = etastart, 8: step size truncated due to divergence Error: NA/NaN/Inf in foreign function call (arg 1) In addition: There were 29 warnings (use warnings() to see them) Thanks for any comment. Gilberto Matos. __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
[R] templating library for R
Hi, does anybody know of a templating library for R, like velocity or freemarker? It doesn't have to be very fancy just a bit better than sub in replacing tags in a text (not necessarily html) file. thank you very much for your answer. Ido __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
[R] Merging two data sets
Dear all R users, Suppose I have two datasets: g = 8/11/200592.75 9/11/200592.30 10/11/200592.55 11/11/200593.90 11/14/200594.20 11/15/200594.40 11/16/200593.90 11/22/200594.60 11/24/200595.50 2/12/2005 101.00 and, h = 11/8/200545.930 11/9/200545.820 11/10/2005 45.815 11/11/2005 45.780 11/12/200545.630 11/13/200545.630 11/14/200545.630 11/15/200545.710 11/16/200545.715 11/17/2005 45.815 I want to merge these two dataset like this: 8/11/200592.75 NA 9/11/200592.30 NA 10/11/200592.55 NA 11/11/200593.90 45.780 11/14/200594.20 45.630 11/15/200594.40 45.710 11/16/200593.90 45.715 11/22/200594.60 NA 11/24/200595.50 NA 2/12/2005 101.00 NA i.e. the length of final dataset should be same as 'g' regardless that of 2nd dataset. Can anyone tell me how to do this? I already used ?merge function like this: h = merge(g,f, by.x=Date, by.y=Date, sort=F, all.x=T, all.y = F, all=F) But it is not giving the thing that I want. Thanks - [[alternative HTML version deleted]] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
[R] [R-pkgs] trip package on CRAN
Hello, The 'trip' package provides extensions to the 'sp' spatial classes for animal track data. Trip objects are created from SpatialPointsDataFrame objects by specifying the columns containing ID and date-time data. Argos formats can be read directly, and there are functions for basic speed filtering and spatial gridding of time spent. Tight integration with 'sp' means that projections and general I/O can be handled using 'rgdal'. (This really is excellent and so I thank the developers of these and supporting packages). Trip is intended for use with location data that are irregularly spaced in time - this contrasts with the rationale behind the traj class in 'adehabitat'. Primarily it has been developed with marine animal data in mind, but the validation of trip classes used should general for many applications. There is a short vignette available from here - it's not integrated into the CRAN-available package yet. http://staff.acecrc.org.au/~mdsumner/Rutas/trip.pdf Cheers, Michael Sumner ___ R-packages mailing list R-packages@stat.math.ethz.ch https://stat.ethz.ch/mailman/listinfo/r-packages __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] Merging two data sets
if you read them in as zoo objects , you can then use merge.zoo but but
I need to
Send you an example of reading them in as zoo objects.
Hold on.
I also have your binders on my shelf ready to send. I've just been
forgetting/busy.
-Original Message-
From: [EMAIL PROTECTED]
[mailto:[EMAIL PROTECTED] On Behalf Of Megh Dal
Sent: Thursday, December 07, 2006 3:35 AM
To: r-help@stat.math.ethz.ch
Subject: [R] Merging two data sets
Dear all R users,
Suppose I have two datasets:
g =
8/11/200592.75
9/11/200592.30
10/11/200592.55
11/11/200593.90
11/14/200594.20
11/15/200594.40
11/16/200593.90
11/22/200594.60
11/24/200595.50
2/12/2005 101.00
and,
h =
11/8/200545.930
11/9/200545.820
11/10/2005 45.815
11/11/2005 45.780
11/12/200545.630
11/13/200545.630
11/14/200545.630
11/15/200545.710
11/16/200545.715
11/17/2005 45.815
I want to merge these two dataset like this:
8/11/200592.75 NA
9/11/200592.30 NA
10/11/200592.55 NA
11/11/200593.90 45.780
11/14/200594.20 45.630
11/15/200594.40 45.710
11/16/200593.90 45.715
11/22/200594.60 NA
11/24/200595.50 NA
2/12/2005 101.00 NA
i.e. the length of final dataset should be same as 'g' regardless that
of 2nd dataset.
Can anyone tell me how to do this?
I already used ?merge function like this:
h = merge(g,f, by.x=Date, by.y=Date, sort=F, all.x=T, all.y = F,
all=F)
But it is not giving the thing that I want.
Thanks
-
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This is not an offer (or solicitation of an offer) to buy/se...{{dropped}}
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Re: [R] Summary shows wrong maximum
Bert-- Well, in an attempt to be pithy, I think I lost my message. The comment was directed not at you specifically, but at the idea that, given four print positions, one would ever want to print zeroes instead of data without an explicit warning. I quite agree with your comments on precision. However, if more than those two or three digits are *printed*, I think they should be as accurate as possible, or accompanied in each place by a written disclaimer. Let's say that the mean of the data is not zero, but that the precision is well within the range of floating point. Then, information is being thrown away for no clear reason. What makes it nasty in my opinion is that the information *appears* to be there. (Maybe this is a problem in semiotics.) So while I don't think 1.01e3 is more correct than 1010, it does not appear to be conveying information that has been stripped from the result. Is the following really how we want R to work? a - c(19001., 19002., 19003., 19006.) summary(a) Min. 1st Qu. MedianMean 3rd Qu.Max. 19000 19000 19000 19000 19000 19010 Respectfully, --Mike Bert Gunter [EMAIL PROTECTED] wrote: Mike: I offered no opinion -- and really didn't have any -- about the worthiness of any of the comments that were made. I just liked Brian's little quotable aside. But since you bait me a bit ... In general, I believe that showing th 2-3 most important -- **not significant** -- digits **and no more** is desirable. By most important I mean the leftmost digits which are changing in the data (there are some caveats in the presence of extreme outliers). Printing more digits merely obfuscates the ability of the eye/brain to perceive the patterns of change in the data, the presumed intent of displaying it (not of storing it, of course). Displaying excessive digits to demonstrate (usually falsely) one's precision is evil. Clarity of communications is the standard we should aspire to. These views have been more eloquently expressed by A.S.C Ehrenburg and Howard Wainer among others... -- Bert Bert Gunter Nonclinical Statistics 7-7374 -Original Message- From: [EMAIL PROTECTED] [mailto:[EMAIL PROTECTED] On Behalf Of Mike Prager Sent: Wednesday, December 06, 2006 11:46 AM To: r-help@stat.math.ethz.ch Subject: Re: [R] Summary shows wrong maximum I don't know about candidacy, and I'm not going to argue about correctness, but it seems to me that the only valid reasons to limit precision of printing in a statistics program are (1) to save space and (2) to allow for machine limitations. This is neither. To chop off information and replace it with zeroes is just plain nasty. Bert Gunter [EMAIL PROTECTED] wrote: Folks: Is So this is at best a matter of opinion, and credentials do matter for opinions. -- Brian Ripley an R fortunes candidate? -- Bert Gunter On Tue, 5 Dec 2006, Oliver Czoske wrote: On Mon, 4 Dec 2006, Uwe Ligges wrote: Sebastian Spaeth wrote: Hi all, I have a list with a numerical column cum_hardreuses. By coincidence I discovered this: max(libs[,cum_hardreuses]) [1] 1793 summary(libs[,cum_hardreuses]) Min. 1st Qu. MedianMean 3rd Qu.Max. 1 2 4 36 141790 (note the max value of 1790) Ouch this is bad! Anything I can do to remedy this? Known bug? No, it's a feature! See ?summary: printing is done up to 3 significant digits by default. Unfortunately, '1790' is printed with *four* significant digits, not three. The correct representation with three significant digits would have to employ scientific notation, 1.79e3. -- Mike Prager, NOAA, Beaufort, NC * Opinions expressed are personal and not represented otherwise. * Any use of tradenames does not constitute a NOAA endorsement. __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] test of spatial dependence?? - ask an ecologist?
Although you don't have coordinates, there has to be some kind of information on spatial relationships. (I am likely saying the same thing as Roger.) Let me see if I have this right. Some large area is partitioned into cells (polygons in an ArcInfo shape file?) and, within each cell you compute something. Then the distance between any two cells may be zero or one, one for any pair of cells that are adjacent, zero for any pair not adjacent. It doesn't strike me as that odd a situation and so I think I would like to know what is a conventional solution. One possibility would be to use Euclidean distances among centroids of cells. I have not reviewed the basis of the Mantel tests used by ecologists. If that is what you need, in looking for a program we would need to be mindful of the fact that a probably different Mantel test is used routinely for evaluation of disease data, in particular specialized as the logrank test of survival analysis. regards, Farrar Roger Bivand [EMAIL PROTECTED] wrote: On Wed, 6 Dec 2006, Xu Yuan wrote: Thanks David and Milton for replies. No, I don't have the coordiates. In other words, my data are not point data. But I think there is a way to test of spatial dependence for areal data or lattice data. In this case, the variable of interest is typically the average value of an area instead of a point. Do you how to do this? But do you know where the areas are in relation to each other? Does the spatialCovariance package help? Roger Thank you. Xu On 12/6/06, Milton Cezar Ribeiro wrote: I never used it, but I beleave that it is a job for mantel.rtest() available on ade4 package. In fact Farrar are right, you will neet the XY coordinates. Give a look at Legendre Legendre text book. HTH, Miltinho Brazil David Farrar escreveu: In addition to the 25 numbers, I assume you have coordinates of each field. Otherwise, I don't understand what you are trying to do. I think ecologists like to use a test due to Mantel in this situation. The prefix auto means self, of course, the idea being that measurements of the same variable under different conditions are correlated. I guess this would be a case of autodependence. For correlation versus dependence, check your intro stats book. de nada, X'X Farrar Xu Yuan wrote: hello R-friends, I am a R beginner and try to ask a basic question: How to test the spatial dependence of a column of data? for example, I have 25 agricultural fields, and I measure the average slope (%) or pH for each field. All I have is 25 numbers. PS, could someone confirm that spatial dependence is equivalent to spatial correlation or spatial autocorrelation or not. Thank you very much. XY [[alternative HTML version deleted]] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. [[alternative HTML version deleted]] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. O Yahoo! está de cara nova. Venha conferir! __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. -- Roger Bivand Economic Geography Section, Department of Economics, Norwegian School of Economics and Business Administration, Helleveien 30, N-5045 Bergen, Norway. voice: +47 55 95 93 55; fax +47 55 95 95 43 e-mail: [EMAIL PROTECTED] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. [[alternative HTML version deleted]] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] incidence and adjacency matrix conversion
Thanks, David. I tried converting my rectangular matrix to a network object and then back to a square matrix. This works for a small artificial dataset (e.g. 2x5), but when I try this on my 1790x45 or transposed 45x1790 matrix, R keeps working for a couple of minutes and then crashes completely without having saved any data first. I assume something is wrong with my data? Cheers Philip David Barron wrote: I think you can do this using the network package. Look at the as.network.matrix and as.matrix.network functions, for example. how can I convert an m x n incidence matrix into an m x m adjacency matrix or an n x n adjacency matrix? The current matrix contains binary data, hence the new matrix would contain counts of common occurrences. __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
[R] Calling R functions in Delphi
Dear All,
Thank you very much for all the insights!
We truly appreciate your thought and your time.
--Anna
-
Anna Belova
Abt Associates Inc.
4800 Montgomery Ln, St 600
Bethesda, MD-20814
phone: 301-347-5304
http://www.abtassociates.com/environment
-
This message may contain privileged and confidential informa...{{dropped}}
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[R] groupedData Error Using outer=TRUE
I'm using groupedData from nlme. I set up a groupedData data.frame with outer=~group1. When I try to plot with outer=TRUE, I get subscript out of bounds. This happens most of the time. When it works, I get spaghetti-type plots for comparing groups. But I don't understand why it doesn't usually work. longa.mod.1.gd - groupedData(mod1.logit~time| name/eye,outer=~group1,data=longa.mod.1) plot(longa.mod.1.gd) plot(longa.mod.1.gd,outer=TRUE) Error in attribs[[outer]][[displayLevel]] : subscript out of bounds What am I doing wrong? Rick B. __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
[R] FW: test of spatial dependence?? - ask a geographer (was ask an ecologist)?
No, you do not necessarily need the XY coordinates. You can also use polygon (field, in your case) adjacency information. See Rogerson, Peter A. 2001. _Statistical methods for geography_. Thousand Oaks: Sage. You might also look at GeoDA, a free and soon-to-be open source spatial analysis package. For your application, it might be easier to use than R. Go to https://www.geoda.uiuc.edu/. Marshall Feldman Center for Urban Studies and Research The University of Rhode Island -Original Message- From: Milton Cezar Ribeiro [mailto:[EMAIL PROTECTED] Sent: Wednesday, December 06, 2006 8:26 AM To: David Farrar; Xu Yuan; r-help@stat.math.ethz.ch Subject: Re: [R] test of spatial dependence?? - ask an ecologist? I never used it, but I beleave that it is a job for mantel.rtest() available on ade4 package. In fact Farrar are right, you will neet the XY coordinates. Give a look at Legendre Legendre text book. HTH, Miltinho Brazil David Farrar [EMAIL PROTECTED] escreveu: In addition to the 25 numbers, I assume you have coordinates of each field. Otherwise, I don't understand what you are trying to do. I think ecologists like to use a test due to Mantel in this situation. The prefix auto means self, of course, the idea being that measurements of the same variable under different conditions are correlated. I guess this would be a case of autodependence. For correlation versus dependence, check your intro stats book. de nada, X'X Farrar Xu Yuan wrote: hello R-friends, I am a R beginner and try to ask a basic question: How to test the spatial dependence of a column of data? for example, I have 25 agricultural fields, and I measure the average slope (%) or pH for each field. All I have is 25 numbers. PS, could someone confirm that spatial dependence is equivalent to spatial correlation or spatial autocorrelation or not. Thank you very much. XY [[alternative HTML version deleted]] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. [[alternative HTML version deleted]] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. - [[alternative HTML version deleted]] Dr. Marshall Feldman, PhD Director of Research and Academic Affairs Center for Urban Studies and Research The University of Rhode Island email: marsh @ uri.edu (remove spaces) telephone: (401) 277-5218 (Providence); (401) 874-5953 (Kingston) fax: (401) 277-5464 (Providence); (401) 874-5511 (Kingston) Providence address: 206E Shepard Building 80 Washington Street Providence, RI 02903-1819 Kingston address: 310 Lippitt Hall Kingston, RI 02881-0815 __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] incidence and adjacency matrix conversion
Phil == Philip Leifeld [EMAIL PROTECTED] on Tue, 05 Dec 2006 22:30:02 +0100 writes: Phil Dear all, Phil how can I convert an m x n incidence matrix into an m x m adjacency Phil matrix or an n x n adjacency matrix? The current matrix contains binary Phil data, hence the new matrix would contain counts of common occurrences. You have not given a self contained reproducible example which would even be useful in such a case.. But just to be sure that the solution is not as simple as I thought it was -- namely I thought, that for binary matrices, crossprod() and tcrossprod() would give what you'd want : n - 10 ; m - 4 set.seed(1) M - matrix(as.logical(rbinom(n*m, size=1, prob = 0.3)), n,m) symnum(M) [1,] . . | . [2,] . . . . [3,] . . . . [4,] | . . . [5,] . | . | [6,] | . . . [7,] | | . | [8,] . | . . [9,] . . | | [10,] . | . . print.table(A.1 - tcrossprod(M), zero = .) [,1] [,2] [,3] [,4] [,5] [,6] [,7] [,8] [,9] [,10] [1,]1.......1 . [2,]......... . [3,]......... . [4,]...1.11.. . [5,]....2.211 1 [6,]...1.11.. . [7,]...121311 1 [8,]....1.11. 1 [9,]1...1.1.2 . [10,]....1.11. 1 print.table(A.2 - crossprod(M), zero = .) [,1] [,2] [,3] [,4] [1,]31.1 [2,]14.2 [3,]..21 [4,]1213 Phil Thank you for your help. you're welcome (if it did help). Martin Maechler, ETH Zurich __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
[R] plot SVM
I use svm , then I want to do like this But give me this error. Does anyone know how to solve these? Aimin plot(m.svm,p5.new,As~Cur) Error in scale(newdata[, object$scaled, drop = FALSE], center = object$x.scale$scaled:center, : (subscript) logical subscript too long __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
[R] help-links.sh not found by help.start() -- do I need to recompile?
Dear Rexperts, after building R 2.4.0 from source in a temporary directory (*without* installation), and subsequently moving the whole source/build tree to another location, I have noticed that I had to change the variables R_SHARE_DIR, R_INCLUDE_DIR, and R_DOC_DIR in the wrapper-script /lib/R/bin/R as to reflect the current situation. However, when I try to run the HTML help via help.start() I still get an error message saying that: sh: /tmp/r-project-build/usr/lib/R/share/sh/help-links.sh: No such file or directory Interestingly, the system still tries to search for scripts in /tmp/r-project-build/, the temporary build directory that clearly isn't valid now. My question is: has the mentioned path become hard-coded in the binaries or am I missing some config-file/wrapper script that needs to be edited in order to reflect the current state? Thank you in advance for any hints! All the best, Ivailo __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] help-links.sh not found by help.start() -- do I need to recompile?
On Thu, 2006-12-07 at 19:34 +0200, Ivailo Stoyanov wrote: Dear Rexperts, after building R 2.4.0 from source in a temporary directory (*without* installation), and subsequently moving the whole source/build tree to another location, I have noticed that I had to change the variables R_SHARE_DIR, R_INCLUDE_DIR, and R_DOC_DIR in the wrapper-script /lib/R/bin/R as to reflect the current situation. However, when I try to run the HTML help via help.start() I still get an error message saying that: sh: /tmp/r-project-build/usr/lib/R/share/sh/help-links.sh: No such file or directory Interestingly, the system still tries to search for scripts in /tmp/r-project-build/, the temporary build directory that clearly isn't valid now. My question is: has the mentioned path become hard-coded in the binaries or am I missing some config-file/wrapper script that needs to be edited in order to reflect the current state? Thank you in advance for any hints! All the best, Ivailo When you moved the source/build tree to another location, did you use 'make install' as root, or did you use 'mv' or 'cp'? The former is the _proper_ way to actually install R, after building from source and this is covered in the R Admin Manual. See: http://cran.r-project.org/doc/manuals/R-admin.html#Installation HTH, Marc Schwartz __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] help-links.sh not found by help.start() -- do I need to recompile?
When you moved the source/build tree to another location, did you use 'make install' as root, or did you use 'mv' or 'cp'? No, I haven't used make install because I prefer to run R from within the build location. The former is the _proper_ way to actually install R, after building from source and this is covered in the R Admin Manual. See: http://cran.r-project.org/doc/manuals/R-admin.html#Installation AFAIK, the approach of running R from within the build location is fully valid as it is noted at the end of section 2.1 Simple compilation, just above the cited one: ... Note: you do not need to install R: you can run it from where it was built. All the best, Ivailo __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] help-links.sh not found by help.start() -- do I need to recompile?
Ivailo Stoyanov wrote: When you moved the source/build tree to another location, did you use 'make install' as root, or did you use 'mv' or 'cp'? No, I haven't used make install because I prefer to run R from within the build location. The former is the _proper_ way to actually install R, after building from source and this is covered in the R Admin Manual. See: http://cran.r-project.org/doc/manuals/R-admin.html#Installation AFAIK, the approach of running R from within the build location is fully valid as it is noted at the end of section 2.1 Simple compilation, just above the cited one: Yes, but then it is not actually installed. ... Note: you do not need to install R: you can run it from where it was built. You can, but note that it doesn't say that you can move the build location afterwards, and in fact, you can not, because of the non-relative pathnames. All the best, Ivailo __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] help-links.sh not found by help.start() -- do I need to recompile?
On Thu, 2006-12-07 at 20:15 +0200, Ivailo Stoyanov wrote: When you moved the source/build tree to another location, did you use 'make install' as root, or did you use 'mv' or 'cp'? No, I haven't used make install because I prefer to run R from within the build location. The former is the _proper_ way to actually install R, after building from source and this is covered in the R Admin Manual. See: http://cran.r-project.org/doc/manuals/R-admin.html#Installation AFAIK, the approach of running R from within the build location is fully valid as it is noted at the end of section 2.1 Simple compilation, just above the cited one: ... Note: you do not need to install R: you can run it from where it was built. All the best, Ivailo A key piece of information not in your original post was that you were not installing R, but wanted to run it from whence it was built...and then moved it and were attempting to run it from a new location. You will need to change $R_HOME, which defines the primary home directory for the currently running R session. This is defined in the main R startup script, which will be in the 'bin' sub-directory for your R tree. I have not validated this that will do it, but short of re-building R in the new location, this should work I think. Many of the environmental vars are hard coded during the build process and then modified during a make install based upon build time configuration options. If you want to install R in a non-default location, I would suggest considering modifying the ./configure options and then building to suit your needs. HTH, Marc __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] help-links.sh not found by help.start() -- do I need to recompile?
Peter Dalgaard wrote: [snip] AFAIK, the approach of running R from within the build location is fully valid as it is noted at the end of section 2.1 Simple compilation, just above the cited one: Yes, but then it is not actually installed. [snip] ... Note: you do not need to install R: you can run it from where it was built. You can, but note that it doesn't say that you can move the build location afterwards, and in fact, you can not, because of the non-relative pathnames. Actually, I have used R for a long time without any (apparent) problems being installed this way. I just changed the mentioned variables manually, and everything was running just fine -- until I needed to check the HTML help recently. Therefore I thought that I've missed to fix some config-file in an analogous maner to solve the problem with the script that wasn't found by the system. I assume that I have to recompile (something that I was hoping to avoid due to the rather decent system I use currently) to get this issue fixed. Am I right? __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
[R] making a grid of points
I'd like to evaluate a function at each point on a 2 or 3-D grid. Is there some function that already does this, or generates the grid of points? My search has led me to the grid and lattice packages, and I found a reference to the sp package (e.g., SpatialGrid) for this. There are things in there that might be relevant, but at first blush many of them are embedded in other concepts (grobs, shingles, rugs) and don't obviously solve the problem. I know this is not a hard thing to program, but I suspect someone has already done it. Any pointers? Thanks. -- Ross Boylan wk: (415) 514-8146 185 Berry St #5700 [EMAIL PROTECTED] Dept of Epidemiology and Biostatistics fax: (415) 514-8150 University of California, San Francisco San Francisco, CA 94107-1739 hm: (415) 550-1062 __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] making a grid of points
Ross
I think you want
?expand.grid
BTW, help.search('grid') finds this.
Cheers ..
Peter Alspach
-Original Message-
From: [EMAIL PROTECTED]
[mailto:[EMAIL PROTECTED] On Behalf Of Ross Boylan
Sent: Friday, 8 December 2006 8:03 a.m.
To: r-help
Subject: [R] making a grid of points
I'd like to evaluate a function at each point on a 2 or 3-D
grid. Is there some function that already does this, or
generates the grid of points?
My search has led me to the grid and lattice packages, and I
found a reference to the sp package (e.g., SpatialGrid) for
this. There are things in there that might be relevant, but
at first blush many of them are embedded in other concepts
(grobs, shingles, rugs) and don't obviously solve the problem.
I know this is not a hard thing to program, but I suspect
someone has already done it. Any pointers?
Thanks.
--
Ross Boylan wk: (415) 514-8146
185 Berry St #5700 [EMAIL PROTECTED]
Dept of Epidemiology and Biostatistics fax: (415) 514-8150
University of California, San Francisco
San Francisco, CA 94107-1739 hm: (415) 550-1062
__
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and provide commented, minimal, self-contained, reproducible code.
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Re: [R] making a grid of points
On Fri, 2006-12-08 at 08:09 +1300, Peter Alspach wrote:
Ross
I think you want
?expand.grid
BTW, help.search('grid') finds this.
Cheers ..
Peter Alspach
I can't believe I missed that--my eye just jumped to all the stuff in
the grid package. Thank you.
-Original Message-
From: [EMAIL PROTECTED]
[mailto:[EMAIL PROTECTED] On Behalf Of Ross Boylan
Sent: Friday, 8 December 2006 8:03 a.m.
To: r-help
Subject: [R] making a grid of points
I'd like to evaluate a function at each point on a 2 or 3-D
grid. Is there some function that already does this, or
generates the grid of points?
My search has led me to the grid and lattice packages, and I
found a reference to the sp package (e.g., SpatialGrid) for
this. There are things in there that might be relevant, but
at first blush many of them are embedded in other concepts
(grobs, shingles, rugs) and don't obviously solve the problem.
I know this is not a hard thing to program, but I suspect
someone has already done it. Any pointers?
Thanks.
--
Ross Boylan wk: (415) 514-8146
185 Berry St #5700 [EMAIL PROTECTED]
Dept of Epidemiology and Biostatistics fax: (415) 514-8150
University of California, San Francisco
San Francisco, CA 94107-1739 hm: (415) 550-1062
__
R-help@stat.math.ethz.ch mailing list
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide
http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.
__
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--
Ross Boylan wk: (415) 514-8146
185 Berry St #5700 [EMAIL PROTECTED]
Dept of Epidemiology and Biostatistics fax: (415) 514-8150
University of California, San Francisco
San Francisco, CA 94107-1739 hm: (415) 550-1062
__
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PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.
Re: [R] making a grid of points
On Thu, 7 Dec 2006, Ross Boylan wrote: I'd like to evaluate a function at each point on a 2 or 3-D grid. Is there some function that already does this, or generates the grid of points? My search has led me to the grid and lattice packages, and I found a reference to the sp package (e.g., SpatialGrid) for this. There are things in there that might be relevant, but at first blush many of them are embedded in other concepts (grobs, shingles, rugs) and don't obviously solve the problem. I know this is not a hard thing to program, but I suspect someone has already done it. Any pointers? Which space are your points in? The sp package might help if the data are spatial/geographical, but I think that expand.grid() is your friend, followed by one of the apply() family to run your function on each row of the data frame output by expand.grid(). Roger Thanks. -- Roger Bivand Economic Geography Section, Department of Economics, Norwegian School of Economics and Business Administration, Helleveien 30, N-5045 Bergen, Norway. voice: +47 55 95 93 55; fax +47 55 95 95 43 e-mail: [EMAIL PROTECTED] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] help-links.sh not found by help.start() -- do I need to recompile?
Marc Schwartz wrote: I have not validated this that will do it, but short of re-building R in the new location, this should work I think. Many of the environmental vars are hard coded during the build process and then modified during a make install based upon build time configuration options. If you want to install R in a non-default location, I would suggest considering modifying the ./configure options and then building to suit your needs. HTH, Marc OK, I'll check the ./configure options passed through the build script I used last time. Thanks to all helpers so far, Ivailo __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] groupedData Error Using outer=TRUE
On 12/7/06, Rick Bilonick [EMAIL PROTECTED] wrote: I'm using groupedData from nlme. I set up a groupedData data.frame with outer=~group1. When I try to plot with outer=TRUE, I get subscript out of bounds. This happens most of the time. When it works, I get spaghetti-type plots for comparing groups. But I don't understand why it doesn't usually work. longa.mod.1.gd - groupedData(mod1.logit~time| name/eye,outer=~group1,data=longa.mod.1) plot(longa.mod.1.gd) plot(longa.mod.1.gd,outer=TRUE) Error in attribs[[outer]][[displayLevel]] : subscript out of bounds What am I doing wrong? Hard to say: PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. -Deepayan __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] help-links.sh not found by help.start() -- do I need to recompile?
Thanks to the valuable hints posted, I managed to track down the source of the problem -- a copy of the *uncorrected* /usr/lib/R/bin/R script was left over in /usr/bin. Thank you again for the patience! Greets, Ivailo __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] Heteroscedasticity consistent standard errors for Spatial error models
Thank you very much for your help, much appreciated. Regards, Oshadhi Samarasinghe RA Department of Economics University of Auckland New Zealand -Original Message- From: Roger Bivand [mailto:[EMAIL PROTECTED] Sent: Thursday, 7 December 2006 10:18 p.m. To: Achim Zeileis Cc: Samarasinghe, Oshadhi Erandika; r-help@stat.math.ethz.ch Subject: Re: [R] Heteroscedasticity consistent standard errors for Spatial error models On Thu, 7 Dec 2006, Achim Zeileis wrote: On Thu, 7 Dec 2006, Samarasinghe, Oshadhi Erandika wrote: Hello, Could anyone please tell me how to estimate Heteroscedasticity Consistent standard errors for a Spatial error model? All the functions I have looked at only works for lm objects. I assume that you looked also at the sandwich package: The methods there do not only work for lm objects but are object-oriented, appropriate methods are already provided for a range of different object classes. So, in principle, you can plug in other models as well, potentially including spatial models if appropriate methods are provided. See vignette(sandwich-OOP, package = sandwich) Disclaimer: I'm not sure whether the spatial structure of spatial models will be appropriately captured by the class of estimators implemented in sandwich. But someone who knows spatial models and their HC covariances should be able to figure that out from the vignette above. I'm also not sure what specialized methods exist... Typically, the use of HC covariances with these kinds of models is an inappropriate fix for missing variables and possibly also wrong functional forms. Some supervisors want them, but in practice fitting a better specified model is superior. It is also possible to sample from the fitted model - I've been looking at MH sampling from MCMCpack - and that I feel is a way to go if the model is badly specified and you can't do anything about it. Settings where natural experiments exist are also very helpful, with shifts in coefficient values and/or standard errors indicating whether the hypothesised cause of difference actually had an effect. It can probably be done, and some journals/referees/supervisors etc. want HC covariances, but I'm afraid that doesn't necessarily mean that they are any use in practice with these pretty rough kinds of models. Roger Best, Z Thank you very much! - Oshadhi __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. -- Roger Bivand Economic Geography Section, Department of Economics, Norwegian School of Economics and Business Administration, Helleveien 30, N-5045 Bergen, Norway. voice: +47 55 95 93 55; fax +47 55 95 95 43 e-mail: [EMAIL PROTECTED] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
[R] I do not understand this
A few days ago there was a thread on calling R from Delphi to which there were several useful responses. Now I responded as well, with what I regard as a useful contribution. Shortly after that, I was not able to able to see the thread in my newsreader (Thunderbird). Suddenly, yesterday I could see the thread again, and now it has vanished, at least from my sight. Now. Is there an error in my reader, or more likely, an error in my use of the reader. Or, has the thread been deleted for some reason. I wonder ... Tom -- ++ | Tom Backer Johnsen, Psychometrics Unit, Faculty of Psychology | | University of Bergen, Christies gt. 12, N-5015 Bergen, NORWAY | | Tel : +47-5558-9185Fax : +47-5558-9879 | | Email : [EMAIL PROTECTED]URL : http://www.galton.uib.no/ | ++ __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] I do not understand this
I use thunderbird as my newsreader and I see the thread just fine. So, don't worry, nobody has deleted what you regard as a useful contribution. Regards Francisco Dr. Francisco J. Zagmutt College of Veterinary Medicine and Biomedical Sciences Colorado State University Tom Backer Johnsen wrote: A few days ago there was a thread on calling R from Delphi to which there were several useful responses. Now I responded as well, with what I regard as a useful contribution. Shortly after that, I was not able to able to see the thread in my newsreader (Thunderbird). Suddenly, yesterday I could see the thread again, and now it has vanished, at least from my sight. Now. Is there an error in my reader, or more likely, an error in my use of the reader. Or, has the thread been deleted for some reason. I wonder ... Tom __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] I do not understand this
Tom Backer Johnsen wrote: A few days ago there was a thread on calling R from Delphi to which there were several useful responses. Now I responded as well, with what I regard as a useful contribution. Shortly after that, I was not able to able to see the thread in my newsreader (Thunderbird). Suddenly, yesterday I could see the thread again, and now it has vanished, at least from my sight. Now. Is there an error in my reader, or more likely, an error in my use of the reader. Or, has the thread been deleted for some reason. I wonder ... Tom How are you reading R-help? Fundamentally, R-help is email based, so once a mail is sent, only the receiver is involved in where it gets (mis)filed. If you are using a mail-to-news gateway like gmane, then there could be an issue with retention times. However, in the case of gmane, I doubt that would be the case because the thread is here: http://thread.gmane.org/gmane.comp.lang.r.general/75135/focus=75164 __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
[R] Simulation in R - Part 2
Hello!
So, the simulation works (drawing 100 samples and then calculate the
model for each sample). Here is the code:
--snip--
# sample size n=200
ergebnisse200 - rep(0, each=100)
stichproben200 - vector(“list”, 100)
default200 - rep(0, each=100)
for (i in seq(1:100)) {
n - dim(daten)[1]
ix - sample(n,200)
samp_i - daten[ix,]# draw samples
y - sum(samp_i$y) # number of defaults
stichproben200[[i]] - samp_i # saving the samples
default200[i] - y # saving the number of defaults
# Modell berechnen:
posterior_i - MCMClogit(y ~ fbl.ind + fekq3 + febitda4 + fuvs + fkru +
fzd + fur3, data=samp_i, b0=prior, B0=precision, tune=0.5) # calculation
ergebnisse200[i] - summary(posterior_i) # saving the results
}
# write out the solutions into an excel-file
write.csv2(ergebnisse200, ergebnisse.csv)
--snip--
My solution has the following form:
http://img296.imageshack.us/my.php?image=ergebnissewa0.jpg
write.csv2 makes the right thing, but in the excel-file, if I open the
csv-file in excel, several objects are next to each other (I'm missing
the line break after each object of the array); look at
http://img67.imageshack.us/my.php?image=ergebnisseexcelbg7.jpg
The problem is that there is an error message by importing the csv in
excel, because there are to many columns needed to import the 100 objects.
So, my question:
Is it possible to write the 100 objects of the array among each other.
Like as it can be seen in R
(http://img296.imageshack.us/my.php?image=ergebnissewa0.jpg)?
Another way is to produce 50 samples in a first turn and then produce 50
samples again in another turn, but this can not be a clean solution
(and surely not the only one).
Hopefully you can help me and this is the last question for my simulation.
Thanks for your efforts
Alex
--
Alexander Geisler * Kaltenbach 151 * A-6272 Kaltenbach
email: [EMAIL PROTECTED] | [EMAIL PROTECTED]
phone: +43 650 / 811 61 90 | skpye: al1405ex
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Re: [R] templating library for R
I am not familiar with velocity or freemarker but the gsubfn package can do string interpolation somewhat similar to perl. The gsubfn and strapply functions in that package can handle arbitrary regular expressions in a similar way. See: http://code.google.com/p/gsubfn/ On 12/7/06, Ido M. Tamir [EMAIL PROTECTED] wrote: Hi, does anybody know of a templating library for R, like velocity or freemarker? It doesn't have to be very fancy just a bit better than sub in replacing tags in a text (not necessarily html) file. thank you very much for your answer. Ido __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
[R] svm plot question
I run the following code, all other is ok, but plot(m.svm,p5.new,As~Cur) is not ok Anyone know why? install.packages(e1071) library(e1071) library(MASS) p5 - read.csv(http://www.public.iastate.edu/~aiminy/data/p_5_2.csv;) p5.new-subset(p5,select=-Ms) p5.new$Y-factor(p5.new$Y) levels(p5.new$Y) - list(Out=c(1), In=c(0)) attach(p5.new) m.svm-svm(Y~P+Aa+As+Cur,data=p5.new) summary(m.svm) plot(m.svm,p5.new,As~Cur) Here is output: install.packages(e1071) --- Please select a CRAN mirror for use in this session --- trying URL 'http://rh-mirror.linux.iastate.edu/CRAN/bin/windows/contrib/2.4/e1071_1.5-16.zip' Content type 'application/zip' length 592258 bytes opened URL downloaded 578Kb package 'e1071' successfully unpacked and MD5 sums checked The downloaded packages are in C:\Documents and Settings\aiminy\Local Settings\Temp\RtmpY0B2qb\downloaded_packages updating HTML package descriptions library(e1071) Loading required package: class library(MASS) p5 - read.csv(http://www.public.iastate.edu/~aiminy/data/p_5_2.csv;) p5.new-subset(p5,select=-Ms) p5.new$Y-factor(p5.new$Y) levels(p5.new$Y) - list(Out=c(1), In=c(0)) attach(p5.new) m.svm-svm(Y~P+Aa+As+Cur,data=p5.new) summary(m.svm) Call: svm(formula = Y ~ P + Aa + As + Cur, data = p5.new) Parameters: SVM-Type: C-classification SVM-Kernel: radial cost: 1 gamma: 0.04 Number of Support Vectors: 758 ( 382 376 ) Number of Classes: 2 Levels: Out In plot(m.svm,p5.new,As~Cur) Error in scale(newdata[, object$scaled, drop = FALSE], center = object$x.scale$scaled:center, : (subscript) logical subscript too long __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] I do not understand this
Peter Dalgaard wrote: Tom Backer Johnsen wrote: A few days ago there was a thread on calling R from Delphi to which there were several useful responses. Now I responded as well, with what I regard as a useful contribution. Shortly after that, I was not able to able to see the thread in my newsreader (Thunderbird). Suddenly, yesterday I could see the thread again, and now it has vanished, at least from my sight. Now. Is there an error in my reader, or more likely, an error in my use of the reader. Or, has the thread been deleted for some reason. I wonder ... Tom How are you reading R-help? Well, using Thunderbird with a filter, throwing everything with [R] in the subject line into a category or box. Fundamentally, R-help is email based, so once a mail is sent, only the receiver is involved in where it gets (mis)filed. That's what I thought, so it may have something to do with my settings. Strange, but I have never seen this before. If you are using a mail-to-news gateway like gmane, then there could be an issue with retention times. However, in the case of gmane, I doubt that would be the case because the thread is here: http://thread.gmane.org/gmane.comp.lang.r.general/75135/focus=75164 OK. That's a relief. I'll switch both mode paranoid and wonder to off and look at the settings of my mail program. In any case, thank you!! And by the way, your book is very nice for an R newbie like me. Tom ++ | Tom Backer Johnsen, Psychometrics Unit, Faculty of Psychology | | University of Bergen, Christies gt. 12, N-5015 Bergen, NORWAY | | Tel : +47-5558-9185Fax : +47-5558-9879 | | Email : [EMAIL PROTECTED]URL : http://www.galton.uib.no/ | ++ __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
[R] How to use read.xls in R
Hello there,
In gdata package, read.xls is to be used for reading excel data (from
windows).
The following is my code:('C:/session/sampledata.xls' is where the file
is stored)
data1-read.xls('C:/session/sampledata.xls',sheet=1)
and I got the following error message:
Error in system(cmd, intern = !verbose) : perl not found
Could you please tell me what I have done wrong and how I should do it?
Thanks a lot
Lisa Wang
Princess Margaret Hospital, Toronto, Ca
tel:416 946 4551
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and provide commented, minimal, self-contained, reproducible code.
Re: [R] How to use read.xls in R
Lisa Wang said the following on 12/7/2006 3:01 PM:
Hello there,
In gdata package, read.xls is to be used for reading excel data (from
windows).
The following is my code:('C:/session/sampledata.xls' is where the file
is stored)
data1-read.xls('C:/session/sampledata.xls',sheet=1)
and I got the following error message:
Error in system(cmd, intern = !verbose) : perl not found
Could you please tell me what I have done wrong and how I should do it?
Thanks a lot
Lisa Wang
Princess Margaret Hospital, Toronto, Ca
tel:416 946 4551
__
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PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.
Please reread ?read.xls. Quote from the Note section:
Either a working version of Perl must be present in the executable
search path, or the exact path of the perl executable must be provided
via the perl argument. See the examples below for an illustration.
You need to install perl.
http://www.activestate.com/Products/ActivePerl/Download.html
HTH,
--sundar
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Re: [R] lmer, p-values and all that
Try using mcmcsamp() to sample from the posterior distribution of the parameter estimates. You can calculate a p-value from that, if that is your desire. Instructions are in the R wiki: http://wiki.r-project.org/rwiki/doku.php?id=guides:lmer-tests HTH, Simon. Dan Bebber wrote: Hello, I've just located the illuminating explanation by Douglas Bates on degrees of freedom in mixed models. The take-home message appears to be: don't trust the p-values from lme. Questions: Should I give up hypothesis testing for fixed effects terms in mixed models? Has my time spent reading Pinheiro Bates been in vain? Is there a publication on this issue? Thanks, Dan Bebber Department of Plant Sciences University of Oxford __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. -- Simon Blomberg, B.Sc.(Hons.), Ph.D, M.App.Stat. Centre for Resource and Environmental Studies The Australian National University Canberra ACT 0200 Australia T: +61 2 6125 7800 email: Simon.Blomberg_at_anu.edu.au F: +61 2 6125 0757 CRICOS Provider # 00120C The combination of some data and an aching desire for an answer does not ensure that a reasonable answer can be extracted from a given body of data. - John Tukey. __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] How to use read.xls in R
You need perl installed for it to work.
Although you normally would not need to use them note the
verbose= and perl= arguments on the read.xls command.
If you don't want to install perl try using RODBC:
library(RODBC)
z - odbcConnectExcel(/a.xls)
dd - sqlFetch(z,Sheet1)
close(z)
On 12/7/06, Lisa Wang [EMAIL PROTECTED] wrote:
Hello there,
In gdata package, read.xls is to be used for reading excel data (from
windows).
The following is my code:('C:/session/sampledata.xls' is where the file
is stored)
data1-read.xls('C:/session/sampledata.xls',sheet=1)
and I got the following error message:
Error in system(cmd, intern = !verbose) : perl not found
Could you please tell me what I have done wrong and how I should do it?
Thanks a lot
Lisa Wang
Princess Margaret Hospital, Toronto, Ca
tel:416 946 4551
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PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.
__
R-help@stat.math.ethz.ch mailing list
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Re: [R] How to use read.xls in R
Or alternatively you can use xlsReadWrite package
install.packages(xlsReadWrite)
library(xlsReadWrite)
read.xls(sampledata.xls)
Regards,
Francisco
Dr. Francisco J. Zagmutt
College of Veterinary Medicine and Biomedical Sciences
Colorado State University
Gabor Grothendieck wrote:
You need perl installed for it to work.
Although you normally would not need to use them note the
verbose= and perl= arguments on the read.xls command.
If you don't want to install perl try using RODBC:
library(RODBC)
z - odbcConnectExcel(/a.xls)
dd - sqlFetch(z,Sheet1)
close(z)
On 12/7/06, Lisa Wang [EMAIL PROTECTED] wrote:
Hello there,
In gdata package, read.xls is to be used for reading excel data (from
windows).
The following is my code:('C:/session/sampledata.xls' is where the file
is stored)
data1-read.xls('C:/session/sampledata.xls',sheet=1)
and I got the following error message:
Error in system(cmd, intern = !verbose) : perl not found
Could you please tell me what I have done wrong and how I should do it?
Thanks a lot
Lisa Wang
Princess Margaret Hospital, Toronto, Ca
tel:416 946 4551
__
R-help@stat.math.ethz.ch mailing list
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.
__
R-help@stat.math.ethz.ch mailing list
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.
__
R-help@stat.math.ethz.ch mailing list
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PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.
Re: [R] groupedData Error Using outer=TRUE
Rick, I think that it will be easier for us to comment if you send us reproducible code. Cna you reproduce the error, for example, using one of the datasets that accompanise the nlme package? If so, please send us that code. If not, then there could bea problem with your data. Either way, we're in a better position to help you. Cheers, Andrew On Thu, Dec 07, 2006 at 11:02:38AM -0500, Rick Bilonick wrote: I'm using groupedData from nlme. I set up a groupedData data.frame with outer=~group1. When I try to plot with outer=TRUE, I get subscript out of bounds. This happens most of the time. When it works, I get spaghetti-type plots for comparing groups. But I don't understand why it doesn't usually work. longa.mod.1.gd - groupedData(mod1.logit~time| name/eye,outer=~group1,data=longa.mod.1) plot(longa.mod.1.gd) plot(longa.mod.1.gd,outer=TRUE) Error in attribs[[outer]][[displayLevel]] : subscript out of bounds What am I doing wrong? Rick B. __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. -- Andrew Robinson Department of Mathematics and StatisticsTel: +61-3-8344-9763 University of Melbourne, VIC 3010 Australia Fax: +61-3-8344-4599 http://www.ms.unimelb.edu.au/~andrewpr http://blogs.mbs.edu/fishing-in-the-bay/ __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
[R] please help me for svm plot question
I run the following code, all other is ok, but plot(m.svm,p5.new,As~Cur) is not ok Anyone know why? install.packages(e1071) library(e1071) library(MASS) p5 - read.csv(http://www.public.iastate.edu/~aiminy/data/p_5_2.csv;) p5.new-subset(p5,select=-Ms) p5.new$Y-factor(p5.new$Y) levels(p5.new$Y) - list(Out=c(1), In=c(0)) attach(p5.new) m.svm-svm(Y~P+Aa+As+Cur,data=p5.new) summary(m.svm) plot(m.svm,p5.new,As~Cur) Here is output: install.packages(e1071) --- Please select a CRAN mirror for use in this session --- trying URL 'http://rh-mirror.linux.iastate.edu/CRAN/bin/windows/contrib/2.4/e1071_1.5-16.zip' Content type 'application/zip' length 592258 bytes opened URL downloaded 578Kb package 'e1071' successfully unpacked and MD5 sums checked The downloaded packages are in C:\Documents and Settings\aiminy\Local Settings\Temp\RtmpY0B2qb\downloaded_packages updating HTML package descriptions library(e1071) Loading required package: class library(MASS) p5 - read.csv(http://www.public.iastate.edu/~aiminy/data/p_5_2.csv;) p5.new-subset(p5,select=-Ms) p5.new$Y-factor(p5.new$Y) levels(p5.new$Y) - list(Out=c(1), In=c(0)) attach(p5.new) m.svm-svm(Y~P+Aa+As+Cur,data=p5.new) summary(m.svm) Call: svm(formula = Y ~ P + Aa + As + Cur, data = p5.new) Parameters: SVM-Type: C-classification SVM-Kernel: radial cost: 1 gamma: 0.04 Number of Support Vectors: 758 ( 382 376 ) Number of Classes: 2 Levels: Out In plot(m.svm,p5.new,As~Cur) Error in scale(newdata[, object$scaled, drop = FALSE], center = object$x.scale$scaled:center, : (subscript) logical subscript too long __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
[R] please help me for svm plot question
I run the following code, all other is ok, but plot(m.svm,p5.new,As~Cur) is not ok Anyone know why? install.packages(e1071) library(e1071) library(MASS) p5 - read.csv(http://www.public.iastate.edu/~aiminy/data/p_5_2.csv;) p5.new-subset(p5,select=-Ms) p5.new$Y-factor(p5.new$Y) levels(p5.new$Y) - list(Out=c(1), In=c(0)) attach(p5.new) m.svm-svm(Y~P+Aa+As+Cur,data=p5.new) summary(m.svm) plot(m.svm,p5.new,As~Cur) Here is output: install.packages(e1071) --- Please select a CRAN mirror for use in this session --- trying URL 'http://rh-mirror.linux.iastate.edu/CRAN/bin/windows/contrib/2.4/e1071_1.5-16.zip' Content type 'application/zip' length 592258 bytes opened URL downloaded 578Kb package 'e1071' successfully unpacked and MD5 sums checked The downloaded packages are in C:\Documents and Settings\aiminy\Local Settings\Temp\RtmpY0B2qb\downloaded_packages updating HTML package descriptions library(e1071) Loading required package: class library(MASS) p5 - read.csv(http://www.public.iastate.edu/~aiminy/data/p_5_2.csv;) p5.new-subset(p5,select=-Ms) p5.new$Y-factor(p5.new$Y) levels(p5.new$Y) - list(Out=c(1), In=c(0)) attach(p5.new) m.svm-svm(Y~P+Aa+As+Cur,data=p5.new) summary(m.svm) Call: svm(formula = Y ~ P + Aa + As + Cur, data = p5.new) Parameters: SVM-Type: C-classification SVM-Kernel: radial cost: 1 gamma: 0.04 Number of Support Vectors: 758 ( 382 376 ) Number of Classes: 2 Levels: Out In plot(m.svm,p5.new,As~Cur) Error in scale(newdata[, object$scaled, drop = FALSE], center = object$x.scale$scaled:center, : (subscript) logical subscript too long __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
[R] svm code, what is wrong here?
install.packages(e1071) Warning: package 'e1071' is in use and will not be installed library(e1071) library(MASS) p5 - read.csv(http://www.public.iastate.edu/~aiminy/data/p_5_2.csv;) attach(p5) The following object(s) are masked from p5 ( position 3 ) : Aa As Cur Ms P Y The following object(s) are masked from p5 ( position 4 ) : Aa As Cur Ms P Y m.svm-svm(as.factor(Y)~.,data=p5) summary(m.svm) Call: svm(formula = as.factor(Y) ~ ., data = p5) Parameters: SVM-Type: C-classification SVM-Kernel: radial cost: 1 gamma: 0.03846154 Number of Support Vectors: 755 ( 377 378 ) Number of Classes: 2 Levels: 0 1 plot(m.svm,p5,As~Cur) Error in scale(newdata[, object$scaled, drop = FALSE], center = object$x.scale$scaled:center, : (subscript) logical subscript too long __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
[R] plot.svm
where is plot.svm method? I just find plot(svm, data, formula) method Aimin __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
[R] formula format for parameter estimation
Hello, I am trying to input the following formula into R for parameter estimation. I don't quite have the just of formula syntax. I understand simple basic regression (y ~ x), but how do I do the ff: y = ( b0*x )/(x + b1), where b0 and b1 are parameters that need to be solved. Any help/suggestions for a newbie would be much appreciated. thanks ./w Wayne Delport Molecular Ecology and Evolution Programme Department of Genetics University of Pretoria Pretoria 0002 South Africa Percy FitzPatrick Institute of African Ornithology University of Cape Town Rondebosch Cape Town 7701 South Africa 640K ought to be enough for anybody Bill Gates, 1981 I love deadlines, I love the whooshing noise they make as they go by. Douglas Adams __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
