[R] problems with too many NA in the function ideal() from pscl package.
Hi all, I'm trying to run some monte carlo simulation for my roll call data using the ideal() function, which resides in the pscl package. However, I'm receiving an error message that I don't understand. Error in ideal(a, maxiter = 1000, thin = 10, burnin = 50, store.item = TRUE, : NA/NaN/Inf in foreign function call (arg 13) my code is simple the following: m_a - ideal(a, maxiter = 1000, thin = 10, burnin = 50, + store.item = TRUE, normalize=T, + priors=list(xp=1e-12,xpv=1e-12,bp=1e-12,bpv=1e-12), verbose=T) ideal: analysis of roll call data via Markov chain Monte Carlo methods. Subsetting rollcall object a using dropList Using the following codes to represent roll call votes: Yea: 1 Nay: 0 Abstentions: NA Not In Legislature: 9 Ideal Point Estimation Number of Legislators30 Number of Items 1172 checking for any user-supplied priors... checking start values... will use eigen-decomposition method to get start values for ideal points...done running 1172 vote-specific probit GLMs for start values for item/bill parameters conditional on start values for ideal points...done using the following start values for ideal points (summary follows): V1 Min. :-0.7573 1st Qu.:-0.1583 Median : 0. Mean :-0.0342 3rd Qu.: 0. Max. : 0.8160 using the following start values for item parameters (summary follows): V1 V2 Min. :-131.2397 Min. :-49.27293 1st Qu.: -1.9090 1st Qu.: -1.33518 Median : -1.5156 Median : -0.34876 Mean : 0.5443 Mean : -0.07001 3rd Qu.: 1.6978 3rd Qu.: 1.22064 Max. : 553.5285 Max. : 65.19820 NA's : 573. Starting MCMC Iterations... Error in ideal(a, maxiter = 1000, thin = 10, burnin = 50, store.item = TRUE, : NA/NaN/Inf in foreign function call (arg 13) + The problem, I think, is that many data matrix has too many NA. Does anybody have any suggestion? Thanks in advance, Antonio. __ R-help@r-project.org 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] Mixed effects model with binomial errors - problem
anyone? RFTW wrote: ok... the model now runs properly (say, without errors). Now about the result. These are the averages per treatments tapply(VecesArbolCo.VecesCo.C1,T2,mean) a b c d 0.49 0.56 0.45 0.58 I run this very simple model summary(model1-lmer(cbind(VisitsExpTree,TotalVisits-VisitsExpTree)~ treatment +(1|Individual), family=binomial, data=r)) Generalized linear mixed model fit by the Laplace approximation Formula: cbind(VisitsExpTree,TotalVisits-VisitsExpTree)~ treatment +(1|Individual) Data: r AIC BIC logLik deviance 242.3 255.9 -116.2232.3 Random effects: GroupsNameVariance Std.Dev. Individuo (Intercept) 0.14075 0.37517 Number of obs: 112, groups: Individuo, 37 Fixed effects: Estimate Std. Error z value Pr(|z|) (Intercept) 0.372280.19031 1.9562 0.05044 . treatmentb 0.033670.24520 0.1373 0.89079 treatmentc -0.606060.23330 -2.5978 0.00938 ** treatmentd -0.255040.22790 -1.1191 0.26311 --- Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1 Correlation of Fixed Effects: (Intr) T2bT2c T2b -0.675 T2c -0.697 0.543 T2d -0.720 0.544 0.581 wouldnt we expect the intercept to be roughtly the mean of treatment a? and thus the estimate of treatmentb to be +0.07, c: -0.04 and d: +0.09 roughly? Is this model just completely not estimating well, or are the estimates not the 'real values'. I tried to get teh predict function to give me the 4 predicted values based on the model, but i havent succeeded in doing so. maybe someone can help me on that one too (predict(model1,type=response) doesnt work) thnx -- View this message in context: http://www.nabble.com/Mixed-effects-model-with-binomial-errorsproblem-tp19413327p19566778.html Sent from the R help mailing list archive at Nabble.com. __ R-help@r-project.org 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 on sampling from the truncated normal/gamma distribution on the far end (probability is very low)
Daniel Davis wrote: Hi, guys, I am trying to sample from a truncated normal/gamma distribution. But only the far end of the distribution (where the probability is very low) is left. e.g. mu = - 4; sigma = 0.1; The distribution is Normal(mu,sigma^2) truncated on [0,+Inf]; How can I get a sample? I tried to use inverse CDF method, but got Inf as answers. Please help me out. You were on track, but you need more awareness of the cancellation issues. Two hints: Use logarithms and look at the correct tail. So: T - pnorm(0, -4, .1, lower=F, log=T) z - qnorm(T-rexp(1000), -4, .1, lower=F, log=T) hist(z) Also, pls help me on the similar situation on gamma dist'n. Exercise for the reader -- O__ Peter Dalgaard Øster Farimagsgade 5, Entr.B c/ /'_ --- Dept. of Biostatistics PO Box 2099, 1014 Cph. K (*) \(*) -- University of Copenhagen Denmark Ph: (+45) 35327918 ~~ - ([EMAIL PROTECTED]) FAX: (+45) 35327907 __ R-help@r-project.org 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 keep up with R?
Hi Wensei. Why not do as I do? Find an interesting area of numerical computation (perhaps not statistical) that has not been implemented in open-source. Then write an R package for it, under GPL-2, then write an article about the new package in R-news or JSS. works for me. Best wishes Robin Wensui Liu wrote: Dear Listers, I've been a big fan of R since graduate school. After working in the industry for years, I haven't had many opportunities to use R and am mainly using SAS. However, I am still forcing myself really hard to stay close to R by reading R-help and books and writing R code by myself for fun. But by and by, I start realizing I have hard time to keep up with R and am afraid that I would totally forget how to program in R. I really like it and am very unwilling to give it up. Is there any idea how I might keep touch with R without using it in work on daily basis? I really appreciate it. [[alternative HTML version deleted]] __ R-help@r-project.org 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. -- Robin K. S. Hankin Senior Research Associate Cambridge Centre for Climate Change Mitigation Research (4CMR) Faculty of Economics The University of Cambridge [EMAIL PROTECTED] 01223-764877 __ R-help@r-project.org 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 do knn regression?
Shengqiao Li shli at stat.wvu.edu writes: Hello, I want to do regression or missing value imputation by knn. I searched r-help mailing list. This question was asked in 2005. ksmooth and loess were recommended. But my case is different. I have many predictors (p20) and I really want try knn with a given k. ksmooth and loess use band width to define neighborhood size. This contrasts to knn's variable band width via fixing a k. Are there any such functions I can use in R packages? The R package 'knnFinder' provides a nearest neighbor search based on the approach through kd-tree data structures. Therefore, it is extremely fast even for very large data sets. It returns as many neighbors as you need and can also be used, e.g., for determining distance-based outliers. Hans Werner Borchers ABB Corporate Research Your help is highly appreciated. Shengqiao Li __ R-help at r-project.org 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@r-project.org 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 keep up with R?
2008/9/19 Wensui Liu [EMAIL PROTECTED]: Dear Listers, I've been a big fan of R since graduate school. After working in the industry for years, I haven't had many opportunities to use R and am mainly using SAS. However, I am still forcing myself really hard to stay close to R by reading R-help and books and writing R code by myself for fun. But by and by, I start realizing I have hard time to keep up with R and am afraid that I would totally forget how to program in R. I really like it and am very unwilling to give it up. Is there any idea how I might keep touch with R without using it in work on daily basis? I really appreciate it. How about doing some kind of presentation on R at your work? It's possible that some of the old fossils don't even know about it at all, and use SAS because to them the alternative is SPSS. Do some R evangelization. Find a task that R does better than SAS (not difficult) and illustrate that to your superiors. Then when they ask how much a corporate R license is, you tell them it's free, or say it'll cost them a 2% raise in your salary, or say it will cost them your resignation if you are feeling brave! Sure you may be tied to SAS for some other reasons, but there's no reason why you can't use R for other things. Work out how to get it into your corporate framework. Encourage your colleagues to look at it for their tasks. Enthuse. The good thing about training and evangelization is that at first you don't need mad skillz at R to do it. I have trouble understanding some of the tips on R-help (especially when do.call() is used), but you can teach new people with a good knowledge of the basics, which you should still have. Eventually the hope is that enough people use R at your workplace to develop a community where everyone keeps everyone else on their toes with R questions! Good luck! Barry __ R-help@r-project.org 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] Type I SS and Type III SS problem
Dear all: I m a newer on R. I have some problem when I use anova function. I use anova function to get Type I SS results, but I also need to get Type III SS results. However, in my code, there is some different between the result of Type I SS and Type III SS. I don’t know why the “seqe” factor disappeared in the result of Type III SS. How can I do? Here is my example and result. a-c(1,1,2,2,3,3,4,4,5,5,6,6,7,7,8,8,9,9,10,10,11,11,12,12,13,13,14,14) b-c(1,2,1,2,1,2,1,2,1,2,1,2,1,2,1,2,1,2,1,2,1,2,1,2,1,2,1,2) c-c(2,1,1,2,2,1,1,2,2,1,1,2,2,1,1,2,2,1,1,2,2,1,1,2,2,1,1,2) d-c(2,2,1,1,2,2,1,1,2,2,1,1,2,2,1,1,2,2,1,1,2,2,1,1,2,2,1,1) e-c(1739,1633,1481,1837,1780,2073,1374,1629,1555,1385,1756,1522,1566,1643, 1939,1615,1475,1759,1388,1483,1127,1682,1542,1247,1235,1605,1598,1718 ) KK-data.frame(subj=as.factor(a), drug=as.factor(b), per=as.factor(c), seqe=as.factor(d), Cmax=e) M- lm(Cmax ~ seqe+ subj:seqe + per + drug , data=KK) anova(M) drop1(M, test=F) The result of Type I SS: Analysis of Variance Table Response: Cmax Df Sum Sq Mean Sq F value Pr(F) seqe 1 585 585 0.0160 0.9014 per 1 63175 63175 1.7293 0.2131 drug 1 58149 58149 1.5917 0.2311 seqe:subj 12 634325 52860 1.4469 0.2660 Residuals 12 438395 36533 The result of Type III SS: Single term deletions Model: AUCt ~ seqe + subj:seqe + per + drug Df Sum of Sq RSS AIC F value Pr(F) none 63208187 442 per 1 2100484 65308672 441 0.3988 0.5396 drug 1 4714183 67922370 442 0.8950 0.3628 seqe:subj 12 35813062 99021249 430 0.5666 0.8308 Best regards, HY Lee _ 想知道無聊生活如何大變身嘛？ http://tw.promote.mail.yahoo.com/dc/change.html __ R-help@r-project.org 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 find a shift between two curves or data sets
Dear Sébastien,
identifying similarity in curves or time series is one of the main tasks
in the quite recent field of 'Functional Data analysis' (FDA). See the
2005 book by Silverman from Springer Verlag or the corresponding Web page
at url{http://www.psych.mcgill.ca/misc/fda/}.
The 'fda' package on CRAN contains functions developed by Silverman and
Ramsey and described in that book. You may also be interested in the 'dtw'
package that provides functions for comparing times series under time
'warping', i.e., distortions along the time axis.
Hans Werner Borchers
ABB Corporate Research
Sébastien Durand wrote:
Hello,
I have a issue here!
I need to find the offset or shift between two data sets.
Each data set does not start nor end at the same time and dont even have
the same sampling interval (which by the way isn't constant in any of
the data set).
It must be known that the data expressed in both the data set are
comming from the same sensor so they should be the same!
What I am looking for is a way to minimize the differences between the
two curves by applying an x offset.
Would any body have a clue how to perform such action, I simply have no
idea were to start.
Thank you very very much.
S.
--
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[R] frequency table across multiple variables
Dear R users, I have a dataframe like this: x1-c(1,2,3,4,NA ,NA ,NA, 3, 1, 1, 1, 1, 2, 2, 3, 4, 4) x2-c(2,3,4,3,4,3,4,2,2,3,4,NA,NA,NA,NA,4,3) x3-c(1,1,1,1,2,2,2,2,3,3,3,3,4,4,4,1,2) m-data.frame(x1,x2,x3) I would like to create a frequency table like this: x1 x2 x3 NA 1 2 3 4 where the values in each cell would be the count of the value for that variable. How can I do this? Thanks for the help. Balázs -- View this message in context: http://www.nabble.com/frequency-table-across-multiple-variables-tp19567838p19567838.html Sent from the R help mailing list archive at Nabble.com. __ R-help@r-project.org 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] PDF fonts problem
Dear Dr. Murrel, Thank you for all the clarifications! Paul Murrell írta: Hi #CMS pdf(tryfont-cms.pdf, family=CMS) grid.text(gg\u151hh\uF6ii\uF3jj kk\u171ll\uFCmm\uFAnn) dev.off() #u151 and u171 doesn't show, though the other accented ones do embedFonts(tryfont-cms.pdf, outfile=tryfont-cms-embed.pdf, fontpaths=/cm-super/afm/) #after embedding the same slipping occurs The 'fontpaths' argument describes where the PFB files are, not where the AFM files are. So this is probably failing to embed the fonts because it can't find the fonts. Does it work if you change to something like ... embedFonts(tryfont-cms.pdf, outfile=tryfont-cms-embed.pdf, fontpaths=cm-super/pfb/) Paul This solved my problem, so I am really very grateful! I am not too familiar with font protocols. Just for the sake of knowledge: if my embedFonts specification should not have made any difference, why did the output pdf differed from the one before embedding? Thanks again, Peter -- This message has been scanned for viruses and dangerous content by MailScanner, and is believed to be clean. __ R-help@r-project.org 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] Mixed effects model with binomial errors - problem
First of all I'm forwarding this mail to the R-SIG-mixed-models, which is more appropriate to your question. Remember that family = bionomial uses by default the logit link. Hence all parameters will be on the logit scale. So you will need to backtransform them for comparison. Then you'll see that the parameters are much closer to the averages. They still differ, but that is due to the difference in model. Your averages are essentially something like summary(model1-glm(cbind(VisitsExpTree,TotalVisits-VisitsExpTree)~ treatment +(1|Individual), family=binomial, data=r)) library(boot) intercept - 0.37228 treatmentb - 0.03367 treatmentc - -0.60606 treatmentd - -0.25504 inv.logit(intercept) [1] 0.5920098 inv.logit(intercept + treatmentb) [1] 0.6001164 inv.logit(intercept + treatmentc) [1] 0.4418197 inv.logit(intercept + treatmentd) [1] 0.5292765 HTH, Thierry ir. Thierry Onkelinx Instituut voor natuur- en bosonderzoek / Research Institute for Nature and Forest Cel biometrie, methodologie en kwaliteitszorg / Section biometrics, methodology and quality assurance Gaverstraat 4 9500 Geraardsbergen Belgium tel. + 32 54/436 185 [EMAIL PROTECTED] www.inbo.be To call in the statistician after the experiment is done may be no more than asking him to perform a post-mortem examination: he may be able to say what the experiment died of. ~ Sir Ronald Aylmer Fisher The plural of anecdote is not data. ~ Roger Brinner 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 -Oorspronkelijk bericht- Van: [EMAIL PROTECTED] [mailto:[EMAIL PROTECTED] Namens RFTW Verzonden: vrijdag 19 september 2008 8:16 Aan: r-help@r-project.org Onderwerp: Re: [R] Mixed effects model with binomial errors - problem anyone? RFTW wrote: ok... the model now runs properly (say, without errors). Now about the result. These are the averages per treatments tapply(VecesArbolCo.VecesCo.C1,T2,mean) a b c d 0.49 0.56 0.45 0.58 I run this very simple model summary(model1-lmer(cbind(VisitsExpTree,TotalVisits-VisitsExpTree)~ treatment +(1|Individual), family=binomial, data=r)) Generalized linear mixed model fit by the Laplace approximation Formula: cbind(VisitsExpTree,TotalVisits-VisitsExpTree)~ treatment +(1|Individual) Data: r AIC BIC logLik deviance 242.3 255.9 -116.2232.3 Random effects: GroupsNameVariance Std.Dev. Individuo (Intercept) 0.14075 0.37517 Number of obs: 112, groups: Individuo, 37 Fixed effects: Estimate Std. Error z value Pr(|z|) (Intercept) 0.372280.19031 1.9562 0.05044 . treatmentb 0.033670.24520 0.1373 0.89079 treatmentc -0.606060.23330 -2.5978 0.00938 ** treatmentd -0.255040.22790 -1.1191 0.26311 --- Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1 Correlation of Fixed Effects: (Intr) T2bT2c T2b -0.675 T2c -0.697 0.543 T2d -0.720 0.544 0.581 wouldnt we expect the intercept to be roughtly the mean of treatment a? and thus the estimate of treatmentb to be +0.07, c: -0.04 and d: +0.09 roughly? Is this model just completely not estimating well, or are the estimates not the 'real values'. I tried to get teh predict function to give me the 4 predicted values based on the model, but i havent succeeded in doing so. maybe someone can help me on that one too (predict(model1,type=response) doesnt work) thnx -- View this message in context: http://www.nabble.com/Mixed-effects-model-with-binomial-errorsproble m-tp19413327p19566778.html Sent from the R help mailing list archive at Nabble.com. __ R-help@r-project.org 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. Dit bericht en eventuele bijlagen geven enkel de visie van de schrijver weer en binden het INBO onder geen enkel beding, zolang dit bericht niet bevestigd is door een geldig ondertekend document. The views expressed in this message and any annex are purely those of the writer and may not be regarded as stating an official position of INBO, as long as the message is not confirmed by a duly signed document. __ R-help@r-project.org 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] frequency table across multiple variables
I have a dataframe like this:
x1-c(1,2,3,4,NA ,NA ,NA, 3, 1, 1, 1, 1, 2, 2, 3, 4, 4)
x2-c(2,3,4,3,4,3,4,2,2,3,4,NA,NA,NA,NA,4,3)
x3-c(1,1,1,1,2,2,2,2,3,3,3,3,4,4,4,1,2)
m-data.frame(x1,x2,x3)
I would like to create a frequency table like this:
x1 x2 x3
NA
1
2
3
4
where the values in each cell would be the count of the value for that
variable.
How can I do this?
The following will work IF all columns are integer:
apply(m, 2, function(x){tabulate(na.omit(x))})
x1 x2 x3
[1,] 5 0 5
[2,] 3 3 5
[3,] 3 5 4
[4,] 3 5 3
Please note that the result will look slightly different, if some columns
contain
the largest value and others don't:
x1-as.integer(c(1,2,3,4,NA ,NA ,NA, 3, 1, 1, 1, 1, 2, 2, 3, 4, 5))
m-data.frame(x1,x2,x3)
apply(m, 2, function(x){tabulate(na.omit(x))})
$x1
[1] 5 3 3 2 1
$x2
[1] 0 3 5 5
$x3
[1] 5 5 4 3
cu
Philipp
--
Dr. Philipp Pagel
Lehrstuhl für Genomorientierte Bioinformatik
Technische Universität München
Wissenschaftszentrum Weihenstephan
85350 Freising, Germany
http://mips.gsf.de/staff/pagel
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and provide commented, minimal, self-contained, reproducible code.
Re: [R] Type I SS and Type III SS problem
leeznar wrote: Dear all: I m a newer on R. I have some problem when I use anova function. I use anova function to get Type I SS results, but I also need to get Type III SS results. However, in my code, there is some different between the result of Type I SS and Type III SS. I don’t know why the “seqe” factor disappeared in the result of Type III SS. How can I do? Well, first make sure that you copy/paste correctly. Your drop1() results appear not to come from the model M!! drop1(M, test=F) Single term deletions Model: Cmax ~ seqe + subj:seqe + per + drug Df Sum of Sq RSS AIC F value Pr(F) none 438395 302 per1 63175 501570 304 1.7293 0.2131 drug 1 58149 496544 304 1.5917 0.2311 seqe:subj 12634325 1072719 303 1.4469 0.2660 So things are not massively different, which is because this is a nicely balanced cross-over trial. In an unbalanced trial, the type I anova would be order-dependent. Now, seqe is nested in subj:seqe, in fact it is even nested in subj (because each subject gets the two treatments in only one order, right?), so taking seqe out of the model doesn't change the fit, as long as, and this is the important bit, subj:seqe. The drop1() function knows this and doesn't do the test. In contrast, anova looks at the effect _before_ subj:seqe was in the model. Since subj:seqe is equivalent to subj, it can be illuminating to write the model in this (equivalent) way and notic the differences: M- lm(Cmax ~ subj + seqe + per + drug , data=KK) anova(M) Analysis of Variance Table Response: Cmax Df Sum Sq Mean Sq F value Pr(F) subj 13 634910 48839 1.3369 0.3109 per1 63175 63175 1.7293 0.2131 drug 1 58149 58149 1.5917 0.2311 Residuals 12 438395 36533 drop1(M) Single term deletions Model: Cmax ~ subj + seqe + per + drug Df Sum of Sq RSS AIC none438395 302 subj 12 634325 1072719 303 seqe0 -1.630e-09 438395 302 per 1 63175 501570 304 drug1 58149 496544 304 And (I think I've said this before on the list): When things are nicely balanced, aov() can be preferable: summary(aov(Cmax ~ per*drug + Error(subj) , data=KK)) Error: subj Df Sum Sq Mean Sq F value Pr(F) per:drug 1585 585 0.0111 0.918 Residuals 12 634325 52860 Error: Within Df Sum Sq Mean Sq F value Pr(F) per1 63175 63175 1.7293 0.2131 drug 1 58149 58149 1.5917 0.2311 Residuals 12 438395 36533 Here is my example and result. a-c(1,1,2,2,3,3,4,4,5,5,6,6,7,7,8,8,9,9,10,10,11,11,12,12,13,13,14,14) b-c(1,2,1,2,1,2,1,2,1,2,1,2,1,2,1,2,1,2,1,2,1,2,1,2,1,2,1,2) c-c(2,1,1,2,2,1,1,2,2,1,1,2,2,1,1,2,2,1,1,2,2,1,1,2,2,1,1,2) d-c(2,2,1,1,2,2,1,1,2,2,1,1,2,2,1,1,2,2,1,1,2,2,1,1,2,2,1,1) e-c(1739,1633,1481,1837,1780,2073,1374,1629,1555,1385,1756,1522,1566,1643, 1939,1615,1475,1759,1388,1483,1127,1682,1542,1247,1235,1605,1598,1718 ) KK-data.frame(subj=as.factor(a), drug=as.factor(b), per=as.factor(c), seqe=as.factor(d), Cmax=e) M- lm(Cmax ~ seqe+ subj:seqe + per + drug , data=KK) anova(M) drop1(M, test=F) The result of Type I SS: Analysis of Variance Table Response: Cmax Df Sum Sq Mean Sq F value Pr(F) seqe 1585 585 0.0160 0.9014 per1 63175 63175 1.7293 0.2131 drug 1 58149 58149 1.5917 0.2311 seqe:subj 12 634325 52860 1.4469 0.2660 Residuals 12 438395 36533 The result of Type III SS: Single term deletions Model: AUCt ~ seqe + subj:seqe + per + drug Df Sum of Sq RSS AIC F value Pr(F) none 63208187 442 per1 2100484 65308672 441 0.3988 0.5396 drug 1 4714183 67922370 442 0.8950 0.3628 seqe:subj 12 35813062 99021249 430 0.5666 0.8308 Best regards, HY Lee _ 想知道無聊生活如何大變身嘛？ http://tw.promote.mail.yahoo.com/dc/change.html __ R-help@r-project.org 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__ Peter Dalgaard Øster Farimagsgade 5, Entr.B c/ /'_ --- Dept. of Biostatistics PO Box 2099, 1014 Cph. K (*) \(*) -- University of Copenhagen Denmark Ph: (+45) 35327918 ~~ - ([EMAIL PROTECTED]) FAX: (+45) 35327907 __ R-help@r-project.org 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] frequency table across multiple variables
Hi
Here is an alternative solution which will include count of the NA. It
may not be formally correct, but it seems to work:
mapply(function(x) table(factor(ifelse(is.na(x), NA, x),
levels=c(NA,1,2,3,4))), m)
x1 x2 x3
NA 3 4 0
1 5 0 5
2 3 3 5
3 3 5 4
4 3 5 3
Hope this helps
Ivar Herfindal
Philipp Pagel skrev:
I have a dataframe like this:
x1-c(1,2,3,4,NA ,NA ,NA, 3, 1, 1, 1, 1, 2, 2, 3, 4, 4)
x2-c(2,3,4,3,4,3,4,2,2,3,4,NA,NA,NA,NA,4,3)
x3-c(1,1,1,1,2,2,2,2,3,3,3,3,4,4,4,1,2)
m-data.frame(x1,x2,x3)
I would like to create a frequency table like this:
x1 x2 x3
NA
1
2
3
4
where the values in each cell would be the count of the value for that
variable.
How can I do this?
The following will work IF all columns are integer:
apply(m, 2, function(x){tabulate(na.omit(x))})
x1 x2 x3
[1,] 5 0 5
[2,] 3 3 5
[3,] 3 5 4
[4,] 3 5 3
Please note that the result will look slightly different, if some columns contain
the largest value and others don't:
x1-as.integer(c(1,2,3,4,NA ,NA ,NA, 3, 1, 1, 1, 1, 2, 2, 3, 4, 5))
m-data.frame(x1,x2,x3)
apply(m, 2, function(x){tabulate(na.omit(x))})
$x1
[1] 5 3 3 2 1
$x2
[1] 0 3 5 5
$x3
[1] 5 5 4 3
cu
Philipp
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Re: [R] Use of colour in plots
Steve, - Use tranparancy to prevent overplotting: more details on p. 16 of the ggplot2 book: http://had.co.nz/ggplot2/book/ - You can choose your own colour with scale_manual(): http://had.co.nz/ggplot2/scale_manual.html - The backgroundcolor can be set with ggopt(background.color = white): http://rweb.stat.umn.edu/R/library/ggplot/html/build-options-8a.html HTH, Thierry ir. Thierry Onkelinx Instituut voor natuur- en bosonderzoek / Research Institute for Nature and Forest Cel biometrie, methodologie en kwaliteitszorg / Section biometrics, methodology and quality assurance Gaverstraat 4 9500 Geraardsbergen Belgium tel. + 32 54/436 185 [EMAIL PROTECTED] www.inbo.be To call in the statistician after the experiment is done may be no more than asking him to perform a post-mortem examination: he may be able to say what the experiment died of. ~ Sir Ronald Aylmer Fisher The plural of anecdote is not data. ~ Roger Brinner 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 -Oorspronkelijk bericht- Van: Steve Murray [mailto:[EMAIL PROTECTED] Verzonden: donderdag 18 september 2008 19:08 Aan: r-help@r-project.org; ONKELINX, Thierry; [EMAIL PROTECTED]; [EMAIL PROTECTED]; [EMAIL PROTECTED] Onderwerp: RE: [R] Use of colour in plots Dear Thierry and all, I've tried out ggplot from the ggplot2 package and it seems to provide much more favourable results! Just a few questions I have after consulting the 'help' file for ggplot. Is there a way of preventing overplotting? Some of the red points are being obscured by the green ones. I've tried changing the size of the points (using size=1) but this doesn't resolve the issue, as there are many points quite densely packed in some parts of the graph. Also how would I change the colours if I wished (for future plots of a similar format)? And how do you customise the legend? Finally, is there a way of changing the grey background of the graph to white? Sorry for all the questions, it's just that I'm new to the ggplot2 package and can't find the answers in the help file or on the associated website! Many thanks to anyone who's able to offer any advice. Best wishes, Steve Subject: RE: [R] Use of colour in plots Date: Thu, 18 Sep 2008 14:52:57 +0200 From: [EMAIL PROTECTED] To: [EMAIL PROTECTED]; [EMAIL PROTECTED]; [EMAIL PROTECTED] CC: r-help@r-project.org Steve, Have a look at the ggplot2 package: library(ggplot2) ggplot(Jan, aes(x = PopDensity, y = Average.Burnt.Area.Fraction, colour = factor(Urban.Rural 1.25))) + geom_point() ir. Thierry Onkelinx Instituut voor natuur- en bosonderzoek / Research Institute for Nature and Forest Cel biometrie, methodologie en kwaliteitszorg / Section biometrics, methodology and quality assurance Gaverstraat 4 9500 Geraardsbergen Belgium tel. + 32 54/436 185 [EMAIL PROTECTED] www.inbo.be To call in the statistician after the experiment is done may be no more than asking him to perform a post-mortem examination: he may be able to say what the experiment died of. ~ Sir Ronald Aylmer Fisher The plural of anecdote is not data. ~ Roger Brinner 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 -Oorspronkelijk bericht- Van: [EMAIL PROTECTED] [mailto:[EMAIL PROTECTED] Namens Steve Murray Verzonden: donderdag 18 september 2008 13:58 Aan: Petr PIKAL; [EMAIL PROTECTED] CC: r-help@r-project.org Onderwerp: Re: [R] Use of colour in plots Dear all, I've finally got round to plotting my data and trying to apply colour (had some problems with the data which I needed to rectify first!). I'm having trouble however getting the colour to work as I'd hoped, despite the help offered in previous messages. Just to recap, and with more specifics this time, I have a data frame as follows: head(Jan) Latitude Longitude Urban.Rural Average.Burnt.Area.Fraction PopDensity GDP 1 -0.25 -49.25 1.00 9e-05 1.8703090 25694 2 -0.25 -50.25 1.00 2e-05 2.5962470 32205 3 -0.25 -50.75 1.00 0e+00 3.5221470 39312 4 -0.25 -51.25 1.042432 5e-06 14.2919000 87685 5 -0.25 -51.75 1.00 1e-05 0.5721315 11376 6 -0.25 -52.25 1.00 4e-05 0.7262031 11083 Cropland.Area..km.2.grid.cell. 1 0.4260444 2 0.3401146 3 0.3036076 4 0.3147694 5 0.2843388 6 0.1734099 I hope to plot Average.Burnt.Area.Fraction (ABAF) against PopDensity (which I have done using: plot(Jan[,3],Jan[,4]) ). However, the twist is, I hope these points to be coloured according to the values of Urban.Rural (but don't want this column to actually be plotted). I am looking to do, if Urban.Rural1.25 then colour the point
[R] panel data analysis possible with mle2 (bbmle)?
Dear R community,
I want to estimate coefficients in a (non-linear) system of equations using
'mle2' from the bbmle package. Right now the whole data is read in as just
one long time series, when it's actually 9 cross sections with 30 observations
each. I would like to be able to test and correct for autocorrelation but
haven't found a way to do this in this package.
On the other hand I have found a package called plm serving for panel
likelihood maximization, but here the regression formula apparently must be
one single equation, whereas I have a system of equations.
In order to give you an idea of what I'm trying to do, I have written this -as
short as possible- sketch of the model - sorry I couldn't make it any shorter:
cross - 3;years - 13 #cross sections and years to be included
frontr-vector(length=years);ggwth - 0.03; frontr[1]=17
for (i in 2:years) {frontr[i]=frontr[i-1]*(1+ggwth)}
frontr - rep(frontr,times=cross)
atech - matrix(0,years,cross);rr1 - matrix(0,years,cross)
agwth - matrix(0,years,cross);cfgwth - matrix(0,years,cross)
aobs -
c(15.89,16.69,17.93,17.49,18.3,19.1,19.2,19.4,20.29,21.13,21.42,22.76,23.83,
14.1,14.4,13.4,14.9,15.23,15.4,15.55,16.7,17.8,18.87,18.99,19.24,20.59,
14.3,14.4,14.7,14.9,15.2,15.43,15.5,17.1,17.5,18,18.3,18.7,19);
dim(aobs) - c(years,cross)
ra - c(-0.62, -0.81, -1.05, -0.97, -0.87, -0.66, -0.67, -0.56,
-0.333, -0.219, -0.13, -0.116, -0.474, -0.838, -0.821, -0.95,
-1.03, -1.26, -1.21, -1.12, -1.19, -1.14, -1, -0.97,
-0.92, -1.05, 0.04, 0.02, -0.11, -0.36, -0.57, -0.7,
-0.71, -0.61, -0.68, -0.9, -1, -1.04, -1.1)
sa - c(1.79, 1.81, 1.81, 1.81, 1.81, 1.81, 1.81, 1.81, 1.81,
1.82, 1.8, 1.79, 1.783, 0.93, 0.96, 0.99, 1.02, 1.04, 1.07,
1.1, 1.12, 1.14, 1.17, 1.19, 1.21, 1.23, 1.35, 1.4,
1.45, 1.5, 1.56, 1.61, 1.66, 1.71, 1.75, 1.81, 1.85,
1.89, 1.93)
ta - c(-1.06, -1.01, -0.97, -0.94, -0.89, -0.82, -0.75, -0.69,
-0.58, -0.54, -0.49, -0.39, -0.31, 0.02, 0.07, 0.087,
0.138, 0.132, 0.244, 0.354, 0.421, 0.606, 0.74, 0.818, 1.048,
1.229, -1.17, -1.159, -1.16, -1.143, -1.137, -1.085, -1.028,
-0.965, -0.919, -0.942, -0.902, -0.828, -0.79)
this is the function that is called by mle2
exfunc - function(c1,c2,c3,cs1,cs2,cs3,ic1,ic2,ic3,cc1,cc2,cc3,alstar,beta1){
x-matrix(0,years*cross,3)
x[,1] - 1
x[,2] - ra
x[,3] - sa
coeffs - vector(length=3)
coeffs[1] - c1
coeffs[2] - c2
coeffs[3] - c3
csp - rep(c(cs1,cs2,cs3),each=years)
e1 - (x %*% coeffs);frfact - csp*plogis(e1);cfrontr - frfact*frontr;
cfrontr1 - cfrontr;dim(cfrontr1) - c(years,cross)
cfgwth[2:years,] - (cfrontr1[2:years,]/cfrontr1[1:(years-1),])-1
x-matrix(1,years*cross,3)
x[,1] - 1
x[,2] - sa
x[,3] - ta
coeffs - vector(length=3)
coeffs[1] - cc1
coeffs[2] - cc2
coeffs[3] - cc3
e1 - (x %*% coeffs);alpha1 - alstar*plogis(e1);dim(alpha1) - c(years,cross)
icfr - c(ic1,ic2,ic3)
atech[1,1:cross] - icfr[1:cross]*cfrontr1[1,1:cross]
rr1[1,1:cross] - atech[1,1:cross]/cfrontr1[1,1:cross]
for (i in 2:years) {
agwth[i,1:cross]=(rr1[i-1,1:cross]-alpha1[i-1,1:cross])*beta1*(1-rr1[i-1,1:cross])+cfgwth[i,1:cross]
atech[i,1:cross]=atech[i-1,1:cross]*(1+agwth[i,1:cross])
rr1[i,1:cross]=atech[i,1:cross]/cfrontr1[i,1:cross]}
pcdiffun - function(a,b) (a-b)/b
pcdif - pcdiffun(atech[2:years,],aobs[2:years,]);sd1 = sd(pcdif)
rt1 = -sum(dnorm(pcdif,mean=0,sd=sd1,log=TRUE))}
##here is where the function ends
library(bbmle)
maxlk - mle2(exfunc,
start=list(c1 = -3.74466306894815,c2 = -0.240135942405391,c3 =
4.44168922065451,
cs1 = 0.962506678868304,cs2 = 0.965725991431272,cs3 =
0.80188688385734,
ic1 = 2.25406162804465,ic2 = 1.68235691305909,ic3 =
2.13468107737406,
cc1 = -8.564358,cc2 = 10.7195144315809,cc3 = 0,
alstar = -2.59819924393425,beta1 = 0.0937403319000222),
method=BFGS,control=list(maxit=1000))
summary(maxlk)
The question now is, if anybody knows a way to make a panel data analysis with
'mle2' or alternatively, how to enter a system of equations instead of just a
single formula in 'plm'.
Thanks in advance,
Erich
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[R] Error message in lmer
Dear list
I try to run a bootstrap with lmer.
I often, but not always, get the error message:
Error in objective(.par, ...) :
Leading minor of order 6 in downdated X'X is not positive definite
(with the number (here 6) varying)
In R-archives I came across some threads that treated this problem,
nevertheless they refer to lmer when using it with family = binomial, so
the solutions that were offered did not solve my problem
(family=quasipoisson) (e.g. adding
control=list(usePQL=FALSE,msVerbose=TRUE) does not make sense nor changes
anything - error remains).
A sample data (d.rba) set is pasted at the end.
attach (d.rba)
y - d.rba$ms
cut2 - d.rba$cut^2
boot - 10
index - seq(1, length(y), 1)
cut.pred - seq(0,20,2)
cut2.pred-cut.pred^2
pred - matrix(data = NA, nrow=boot, ncol=length(cut.pred))
for (j in 1 : boot){
id - sample(index, replace=T)
y.boot - y[id]
age_insects.boot - age_insects[id]
cut.boot - cut[id]
cut2.boot - cut2[id]
rV.rGb.boot - rV.rGb[id]
ECON_MN.boot - ECON_MN[id]
SHDI.boot - SHDI[id]
city.boot - city[id]
lmer.5 -lmer(y.boot ~ cut.boot + cut2.boot + rV.rGb.boot +
age_insects.boot + ECON_MN.boot + SHDI.boot +
(1|city.boot),family=quasipoisson)
for (i in 1:length(cut.pred)){
pred[j,i] - exp ([EMAIL PROTECTED] + [EMAIL PROTECTED] +
[EMAIL PROTECTED] + [EMAIL PROTECTED]
mean(rV.rGb)[EMAIL PROTECTED](age_insects) +
[EMAIL PROTECTED](ECON_MN) + [EMAIL PROTECTED](SHDI))
}
}
sessionInfo()
R version 2.6.0 (2007-10-03)
i386-pc-mingw32
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] lme4_0.99875-9Matrix_0.999375-4 lattice_0.16-5
loaded via a namespace (and not attached):
[1] grid_2.6.0 nlme_3.1-85
I found two hypothesis that could be the source of the problem but I cannot
figure out how to test them nor how to solve them.
1) it's a loop-matrix interaction (=batch-) problem. Even though I
sometimes do get the error message when I run it individually. Nevertheless
this was suggested as the potential error in one response but no solution
was offered (http://tolstoy.newcastle.edu.au/R/e2/help/06/10/2918.html)
2) the selected samples out of my data set (id) to run the predictions
create the problem (maybe if some x values = 0?)
Thanks a lot for your time! I very much appreciate the help.
Thomas
Here a chunk of the data:
(n = 30, ntotal = 96)
location ms cut age_insects city rV.rGb ECON_MN SHDI
101 328 3 6 ZH 78.46 32.13 0.926
102 211 8 2 ZH 77.60 7.54 0.614
103 306 1 3 ZH 60.23 20.57 0.831
104 195 3 1 ZH 67.48 18.33 0.872
105 232 11 49 ZH 58.90 8.67 0.682
106 291 2 20 ZH 2.49 70.45 0.637
107 297 9 44 ZH 22.85 5.73 0.522
108 281 11 55 ZH 47.71 7.83 0.533
109 278 5 54 ZH 48.10 23.81 0.657
110 309 12 36 ZH 23.57 42.95 0.346
201 256 12 34 LU 42.03 8.61 0.528
202 240 8 10 LU 58.88 8.50 0.680
203 274 3 3 LU 62.23 47.09 1.070
204 305 7 46 LU 55.33 21.95 0.722
205 269 9 86 LU 7.72 29.87 0.896
206 367 9 49 LU 42.13 33.77 0.932
207 249 10 12 LU 39.22 13.36 0.964
208 336 2 21 LU 15.03 55.44 0.814
209 190 6 4 LU 70.16 12.00 0.744
210 302 6 71 LU 78.45 7.27 0.645
301 258 6 31 LG 73.64 7.80 0.669
302 257 11 36 LG 69.70 20.90 0.716
303 323 12 20 LG 56.42 19.70 0.522
304 213 20 13 LG 47.55 18.00 0.908
305 261 12 14 LG 61.13 8.18 0.511
306 169 12 1 LG 47.90 31.28 0.761
307 242 9 30 LG 42.68 7.47 0.417
308 222 12 16 LG 31.73 16.14 0.742
309 255 5 36 LG 80.45 7.48 0.666
310 320 2 71 LG 64.24 31.96 0.676
___
Thomas Sattler
Swiss Federal Research Institute WSL
Bellinzona, Birmensdorf
Conservation Biology
Institute of Ecology and Evolution (IEE), University of Bern
http://www.wsl.ch/personal_homepages/sattlerhttp://www.wsl.ch/personal_homepages/sattler
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Re: [R] Still no R-2.7.2 rpms for Redhat Enterprise Linux
We'll see what we can do. I have forwarded your email to Bob Kinney,
who builds the RHEL RPMS.
Martyn
On Thu, 2008-09-18 at 14:57 -0700, Waichler, Scott R wrote:
There's already an announcement about R 2.8.0, and yet there are still
no R-2.7.2 binaries (rpms) for Redhat Enterprise Linux 4 and 5. Can the
usual responsible party get on it? Can the system be improved to get
more timely builds out on CRAN?
Thanks,
Scott Waichler
Pacific Northwest National Laboratory
---
This message and its attachments are strictly confidenti...{{dropped:8}}
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Re: [R] frequency table across multiple variables
Hi, I went for a slight alteration of your solution x1-c(1,2,3,4,NA ,NA ,NA, 3, 1, 1, 1, 1, 2, 2, 3, 4, 4) x2-c(2,3,4,3,4,3,4,2,2,3,4,NA,NA,NA,NA,4,3) x3-c(1,1,1,1,aaa,2,2,2,3,3,3,3,4,4,4,1,2) m-data.frame(x1,x2,x3) m-replace(m,is.na(m),NA) levels=unique(as.vector(as.matrix(m))) mapply(function(x) table(factor(levels)), m) Many thanks for the help of both of you. Balázs Ivar Herfindal wrote: mapply(function(x) table(factor(ifelse(is.na(x), NA, x), levels=c(NA,1,2,3,4))), m) -- View this message in context: http://www.nabble.com/frequency-table-across-multiple-variables-tp19567838p19569510.html Sent from the R help mailing list archive at Nabble.com. __ R-help@r-project.org 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] migrating data from s-plus to R
Dear all, is there any way to transform a .Data directory created in S-plus 6.1 for windows in a .RData file? Thanks in advance, Patrizio Frederic __ R-help@r-project.org 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] frequency table across multiple variables
or ... sapply(m,function(x) table(factor(x, levels=c(NA, 1:4), exclude=NULL))) On Fri, Sep 19, 2008 at 12:59 PM, Ralikwen [EMAIL PROTECTED] wrote: Hi, I went for a slight alteration of your solution x1-c(1,2,3,4,NA ,NA ,NA, 3, 1, 1, 1, 1, 2, 2, 3, 4, 4) x2-c(2,3,4,3,4,3,4,2,2,3,4,NA,NA,NA,NA,4,3) x3-c(1,1,1,1,aaa,2,2,2,3,3,3,3,4,4,4,1,2) m-data.frame(x1,x2,x3) m-replace(m,is.na(m),NA) levels=unique(as.vector(as.matrix(m))) mapply(function(x) table(factor(levels)), m) Many thanks for the help of both of you. Balázs Ivar Herfindal wrote: mapply(function(x) table(factor(ifelse(is.na(x), NA, x), levels=c(NA,1,2,3,4))), m) -- View this message in context: http://www.nabble.com/frequency-table-across-multiple-variables-tp19567838p19569510.html Sent from the R help mailing list archive at Nabble.com. __ R-help@r-project.org 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@r-project.org 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] R on a eeepc 901 ?
The one with Linux (Xandros) As an alternative in case I don't get through with the R installation(s) in Xandros, I've installed ubuntu-eee on a usb memory stick for booting from it and plan to go on with a regular ubuntu R installation, but have not decided yet whether I'll be erasing the Xandros OS in the internal SSD. So I'd appreciate help to install and test R on Xandros to compare. Thanks Agus Agustin, which EEE PC 901 is it? The one for Windoze or Linux (Xandros)? el on 9/16/08 6:50 PM Agustin Lobo said the following: Hi! it seems that the directions in http://wiki.r-project.org/rwiki/doku.php?id=getting-started:installation:eeepc refer to installing R on a eeepc 701 and actually fail for a 901 at the first step. Does anyone have any experience on installing R on a eeepc 901? Thanks -- Dr. Agustin Lobo Institut de Ciencies de la Terra Jaume Almera (CSIC) LLuis Sole Sabaris s/n 08028 Barcelona Spain Tel. 34 934095410 Fax. 34 934110012 email: [EMAIL PROTECTED] http://www.ija.csic.es/gt/obster __ R-help@r-project.org 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: Adding 1 month to a dataframe column
It works great! Thank you so much Gabor Angelo Linardi -Messaggio originale- Da: Gabor Grothendieck [mailto:[EMAIL PROTECTED] Inviato: giovedì 18 settembre 2008 21.16 A: LINARDI ANGELO Cc: r-help@r-project.org Oggetto: Re: [R] Adding 1 month to a dataframe column Try this: # example data - Jan 31/00, Feb 29/00, Mar 31/00, ..., Dec 31/00 d - seq(as.Date(2000-02-01), by = month, length = 12) - 1 d # find beginning of next month nextmon - function(d) as.Date(cut(as.Date(cut(d, month)) + 32, month)) # add number of days from start of current month to next month nextmon(d) + as.POSIXlt(d)$mday - 1 # If all your dates are at month end and you want the plus 1 month # to be at month end too then replace last line with: nextmon(nextmon(d)) - 1 The last one can be done even more easily with as.yearmon from zoo. It converts the dates to a year plus 0 for jan, 1/12 for feb, etc. Also, as.Date.yearmon(..., frac = 1) converts back from yearmon class to Date class using end of month for the result so: library(zoo) as.Date(as.yearmon(d) + 1/12, frac = 1) On Thu, Sep 18, 2008 at 12:24 PM, [EMAIL PROTECTED] wrote: Dear R experts, I have a problem in modifying one column of a dataframe with a datatime format using a datetime operator. Here is my dataframe A: DATACONT PROVINCIA VALORE 1 2007-12-31MI 1 2 2007-12-31PV 2 3 2007-12-31NA 3 4 2007-12-31MI 4 5 2007-12-31RM 5 6 2007-12-31RM 6 7 2007-12-31MI 7 8 2008-12-31MI 11 9 2008-12-31PV 12 10 2008-12-31NA 13 11 2008-12-31MI 14 12 2008-12-31RM 15 13 2008-12-31RM 16 14 2008-12-31MI 17 15 2006-12-31MI -9 16 2006-12-31PV -8 17 2006-12-31NA -7 18 2006-12-31MI -6 19 2006-12-31RM -5 20 2006-12-31RM -4 21 2006-12-31MI -3 Suppose I want to shift all dates by 1 year, obtaining the following dataframe B: DATACONT PROVINCIA VALORE 1 2008-12-31MI 1 2 2008-12-31PV 2 3 2008-12-31NA 3 4 2008-12-31MI 4 5 2008-12-31RM 5 6 2008-12-31RM 6 7 2008-12-31MI 7 8 2009-12-31MI 11 9 2009-12-31PV 12 10 2009-12-31NA 13 11 2009-12-31MI 14 12 2009-12-31RM 15 13 2009-12-31RM 16 14 2009-12-31MI 17 15 2007-12-31MI -9 16 2007-12-31PV -8 17 2007-12-31NA -7 18 2007-12-31MI -6 19 2007-12-31RM -5 20 2007-12-31RM -4 21 2007-12-31MI -3 I tried with seq.Date: seq.Date(a$DATA,by=1 month,len=2)[2] but it works only for single values (the from must have length=1). Any hints ? Thank you in advance Angelo Linardi ** Le e-mail provenienti dalla Banca d'Italia sono trasmesse in buona fede e non comportano alcun vincolo ne' creano obblighi per la Banca stessa, salvo che cio' non sia espressamente previsto da un accordo scritto. Questa e-mail e' confidenziale. Qualora l'avesse ricevuta per errore, La preghiamo di comunicarne via e-mail la ricezione al mittente e di distruggerne il contenuto. La informiamo inoltre che l'utilizzo non autorizzato del messaggio o dei suoi allegati potrebbe costituire reato. Grazie per la collaborazione. -- E-mails from the Bank of Italy are sent in good faith but they are neither binding on the Bank nor to be understood as creating any obligation on its part except where provided for in a written agreement. This e-mail is confidential. If you have received it by mistake, please inform the sender by reply e-mail and delete it from your system. Please also note that the unauthorized disclosure or use of the message or any attachments could be an offence. Thank you for your cooperation. ** __ R-help@r-project.org 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. ** Le e-mail provenienti dalla Banca d'Italia sono trasmesse in buona fede e non comportano alcun vincolo ne' creano obblighi per la Banca stessa, salvo che cio' non sia espressamente previsto da un accordo scritto. Questa e-mail e' confidenziale. Qualora l'avesse ricevuta per errore, La preghiamo di comunicarne via e-mail la ricezione al mittente e di distruggerne il contenuto. La informiamo inoltre che l'utilizzo non autorizzato del messaggio o dei suoi allegati potrebbe costituire reato. Grazie per la collaborazione. -- E-mails from the Bank of Italy are sent in good faith but they are neither binding on the Bank nor to be understood as creating any obligation
[R] spatstat - tabulate point pattern
Hi, Is it possible to tabulate (count) points generated by spatstat ppp() using any regular Grid created with owin()? The idea is to count No of points in each grid cell. Any other method available? Paulo __ R-help@r-project.org 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] migrating data from s-plus to R
You might find something about this in the R manual R Data Import/Export --- On Fri, 9/19/08, Patrizio Frederic [EMAIL PROTECTED] wrote: From: Patrizio Frederic [EMAIL PROTECTED] Subject: [R] migrating data from s-plus to R To: r-help@r-project.org r-help@r-project.org Received: Friday, September 19, 2008, 7:33 AM Dear all, is there any way to transform a .Data directory created in S-plus 6.1 for windows in a .RData file? Thanks in advance, Patrizio Frederic __ R-help@r-project.org 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. __ [[elided Yahoo spam]] __ R-help@r-project.org 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 show complete time values in a plot x axis
Dear Yihui,
The resulting plot produced by dotchart is not what I wish for!
I need to produce a time axis that is consequent to the time values.
When dotchart is used, time values are simply considered as labels.
What I wish for is a way to produce a numerical time axis that really
takes into account the given time values. With plot I have been able to
do so, the only issue is the labelling.
I wish to represent the complete time on the axis ticks...
Cheers
Sébastien Durand
CIDCO
Yihui Xie a écrit :
Hi, I'd suggest you use dotchart() instead of plot(). I believe this
is what you expected:
dotchart(value, time)
Regards,
Yihui
--
Yihui Xie [EMAIL PROTECTED]
Phone: +86-(0)10-82509086 Fax: +86-(0)10-82509086
Mobile: +86-15810805877
Homepage: http://www.yihui.name
School of Statistics, Room 1037, Mingde Main Building,
Renmin University of China, Beijing, 100872, China
On Fri, Sep 19, 2008 at 3:10 AM, Sébastien Durand
[EMAIL PROTECTED] wrote:
Hello,
I have the following data and I try to properly
import it in R and plot the 4th column relative to time
1 2008-249 17:44:17.973-2.27 : Accepted
2 2008-249 17:44:18.014-2.28 : Accepted
3 2008-249 17:44:18.064-2.29 : Accepted
4 2008-249 17:44:18.123-2.29 : Accepted
5 2008-249 17:44:18.174-2.29 : Accepted
6 2008-249 17:44:18.225-2.29 : Accepted
7 2008-249 17:44:18.274-2.28 : Accepted
8 2008-249 17:44:18.325-2.28 : Accepted
9 2008-249 17:44:18.375-2.28 : Accepted
10 2008-249 17:44:18.424-2.27 : Accepted
11 2008-249 17:44:18.475-2.26 : Accepted
12 2008-249 17:44:18.514-2.24 : Accepted
13 2008-249 17:44:18.565-2.23 : Accepted
14 2008-249 17:44:18.615-2.20 : Accepted
15 2008-249 17:44:18.674-2.17 : Accepted
16 2008-249 17:44:18.725-2.15 : Accepted
17 2008-249 17:44:18.774-2.12 : Accepted
18 2008-249 17:44:18.825-2.09 : Accepted
19 2008-249 17:44:18.875-2.06 : Accepted
20 2008-249 17:44:18.925-2.03 : Accepted
21 2008-249 17:44:18.975-2.00 : Accepted
22 2008-249 17:44:19.026-1.97 : Accepted
23 2008-249 17:44:19.055-1.95 : Accepted
#I copy the previous data then in R dat=readLines(clipboard)
options(digits.secs=6)
tmp=unlist(lapply(dat,function(x){unlist(strsplit(x,\\
+,perl=TRUE))[3:5]}))
tmp=matrix(tmp,ncol=3,byrow=TRUE)
tmp=cbind(paste(tmp[,1],tmp[,2]),tmp[,3])
time=strptime(tmp[,1], format=%Y-%j %H:%M:%OS)
value=as.numeric(tmp[,2])
plot(time,value)
#How can I show in the x axis the complete time values including the
decimals.
Thanks a lot
N.B.: I am running the lastest version of R and using it under Windows XP
S.
__
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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@r-project.org 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] How to show complete time values in a plot x axis
On 9/19/2008 9:14 AM, Sébastien Durand wrote:
Dear Yihui,
The resulting plot produced by dotchart is not what I wish for!
I need to produce a time axis that is consequent to the time values.
When dotchart is used, time values are simply considered as labels.
What I wish for is a way to produce a numerical time axis that really
takes into account the given time values. With plot I have been able to
do so, the only issue is the labelling.
I wish to represent the complete time on the axis ticks...
Ask plot not to produce an axis, then construct the labels yourself and
add them. The axis.POSIXct() function will be helpful in this.
Duncan Murdoch
Cheers
Sébastien Durand
CIDCO
Yihui Xie a écrit :
Hi, I'd suggest you use dotchart() instead of plot(). I believe this
is what you expected:
dotchart(value, time)
Regards,
Yihui
--
Yihui Xie [EMAIL PROTECTED]
Phone: +86-(0)10-82509086 Fax: +86-(0)10-82509086
Mobile: +86-15810805877
Homepage: http://www.yihui.name
School of Statistics, Room 1037, Mingde Main Building,
Renmin University of China, Beijing, 100872, China
On Fri, Sep 19, 2008 at 3:10 AM, Sébastien Durand
[EMAIL PROTECTED] wrote:
Hello,
I have the following data and I try to properly
import it in R and plot the 4th column relative to time
1 2008-249 17:44:17.973-2.27 : Accepted
2 2008-249 17:44:18.014-2.28 : Accepted
3 2008-249 17:44:18.064-2.29 : Accepted
4 2008-249 17:44:18.123-2.29 : Accepted
5 2008-249 17:44:18.174-2.29 : Accepted
6 2008-249 17:44:18.225-2.29 : Accepted
7 2008-249 17:44:18.274-2.28 : Accepted
8 2008-249 17:44:18.325-2.28 : Accepted
9 2008-249 17:44:18.375-2.28 : Accepted
10 2008-249 17:44:18.424-2.27 : Accepted
11 2008-249 17:44:18.475-2.26 : Accepted
12 2008-249 17:44:18.514-2.24 : Accepted
13 2008-249 17:44:18.565-2.23 : Accepted
14 2008-249 17:44:18.615-2.20 : Accepted
15 2008-249 17:44:18.674-2.17 : Accepted
16 2008-249 17:44:18.725-2.15 : Accepted
17 2008-249 17:44:18.774-2.12 : Accepted
18 2008-249 17:44:18.825-2.09 : Accepted
19 2008-249 17:44:18.875-2.06 : Accepted
20 2008-249 17:44:18.925-2.03 : Accepted
21 2008-249 17:44:18.975-2.00 : Accepted
22 2008-249 17:44:19.026-1.97 : Accepted
23 2008-249 17:44:19.055-1.95 : Accepted
#I copy the previous data then in R dat=readLines(clipboard)
options(digits.secs=6)
tmp=unlist(lapply(dat,function(x){unlist(strsplit(x,\\
+,perl=TRUE))[3:5]}))
tmp=matrix(tmp,ncol=3,byrow=TRUE)
tmp=cbind(paste(tmp[,1],tmp[,2]),tmp[,3])
time=strptime(tmp[,1], format=%Y-%j %H:%M:%OS)
value=as.numeric(tmp[,2])
plot(time,value)
#How can I show in the x axis the complete time values including the
decimals.
Thanks a lot
N.B.: I am running the lastest version of R and using it under Windows XP
S.
__
R-help@r-project.org 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@r-project.org 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@r-project.org 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.
[R] intToUtf8
Hi there, any explanation for this? intToUtf8(66) Error in intToUtf8(66) : argument 'x' must be an integer vector intToUtf8(c(66,55)) Error in intToUtf8(c(66, 55)) : argument 'x' must be an integer vector intToUtf8(c(66,55),multiple=TRUE) Error in intToUtf8(c(66, 55)) : argument 'x' must be an integer vector Errr... 66 and c(66,55) are as integer vectorish as anything can be, aren't they? version _ platform i686-pc-linux-gnu arch i686 os linux-gnu system i686, linux-gnu status major 2 minor 6.0 year 2007 month 10 day03 svn rev43063 language R version.string R version 2.6.0 (2007-10-03) Thanks, Christian *** --- *** Christian Hennig University College London, Department of Statistical Science Gower St., London WC1E 6BT, phone +44 207 679 1698 [EMAIL PROTECTED], www.homepages.ucl.ac.uk/~ucakche __ R-help@r-project.org 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] Use of colour in plots
Jim, Thanks for this - I've looked into cluster.overplot in particular which, judging by the help file, sounds quite useful (count.overplot seems less relevant). I'm finding however, that when I execute cluster.overplot, it simply returns many values (which total the number in the dataset I'm using, 54041), but doesn't produce, or alter my graph! Is this to be expected? If so, what do the ouput values represent? Because not *all* of the values overplot, so I'm confused as to why the number of cluster.overplot output values equals the number of values in my dataset! Thanks, Steve Date: Fri, 19 Sep 2008 21:57:03 +1000 From: [EMAIL PROTECTED] To: [EMAIL PROTECTED] Subject: Re: [R] Use of colour in plots Steve Murray wrote: Greg, [[elided Hotmail spam]] One (hopefully final!) question I have is, is there any way of preventing overplotting? I'm finding that many of the red points are being obscured by the greens - I've tried making the point sizes small (cex=0.1) but this doesn't fully solve the problem. Or even, is there a way of changing the order of which the points are plotted? Hi again, Maybe cluster.overplot or count.overplot in the plotrix package? Jim __ R-help@r-project.org 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] getting line breaks with xtable
Sorry, for asking the same question again, but I got no reactions the last time. Maybe it was just overseen by the experts. I'm using the xtable function with Sweave and Lyx and I would like to know how to get automatic line breaks for long strings in a column of the table. I've learned from the Lyx wiki that the Latex command \linebreak produces table cells with multiple lines. I tried to insert \linebreak into the character string, but it didn't work out, because Sweave transforms it automatically to $\backslash$linebreak. Any help is highly appreciated. Erich __ R-help@r-project.org 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] Use of colour in plots
Thierry, Thanks - I've had a look into using the transparency option, but can't seem to work out where to place it within the command I'm using: ggplot(Jan, aes(x = PopDensity, y = Average.Burnt.Area.Fraction, colour = factor(Urban.Rural 1.25))) + geom_point() I'm assuming that it has to go in the 'aes' section somewhere, but I seem to be encountering errors wherever I insert it. This doesn't seem to be mentioned in the book, so do you have any tips?! Also, out of interest, what does the 'geom_point()' command do? Thanks again, Steve Subject: RE: [R] Use of colour in plots Date: Fri, 19 Sep 2008 10:31:58 +0200 From: [EMAIL PROTECTED] To: [EMAIL PROTECTED]; r-help@r-project.org Steve, - Use tranparancy to prevent overplotting: more details on p. 16 of the ggplot2 book: http://had.co.nz/ggplot2/book/ - You can choose your own colour with scale_manual(): http://had.co.nz/ggplot2/scale_manual.html - The backgroundcolor can be set with ggopt(background.color = white): http://rweb.stat.umn.edu/R/library/ggplot/html/build-options-8a.html HTH, Thierry ir. Thierry Onkelinx Instituut voor natuur- en bosonderzoek / Research Institute for Nature and Forest Cel biometrie, methodologie en kwaliteitszorg / Section biometrics, methodology and quality assurance Gaverstraat 4 9500 Geraardsbergen Belgium tel. + 32 54/436 185 [EMAIL PROTECTED] www.inbo.be To call in the statistician after the experiment is done may be no more than asking him to perform a post-mortem examination: he may be able to say what the experiment died of. ~ Sir Ronald Aylmer Fisher The plural of anecdote is not data. ~ Roger Brinner 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 -Oorspronkelijk bericht- Van: Steve Murray [mailto:[EMAIL PROTECTED] Verzonden: donderdag 18 september 2008 19:08 Aan: r-help@r-project.org; ONKELINX, Thierry; [EMAIL PROTECTED]; [EMAIL PROTECTED]; [EMAIL PROTECTED] Onderwerp: RE: [R] Use of colour in plots Dear Thierry and all, I've tried out ggplot from the ggplot2 package and it seems to provide much more favourable results! Just a few questions I have after consulting the 'help' file for ggplot. Is there a way of preventing overplotting? Some of the red points are being obscured by the green ones. I've tried changing the size of the points (using size=1) but this doesn't resolve the issue, as there are many points quite densely packed in some parts of the graph. Also how would I change the colours if I wished (for future plots of a similar format)? And how do you customise the legend? Finally, is there a way of changing the grey background of the graph to white? Sorry for all the questions, it's just that I'm new to the ggplot2 package and can't find the answers in the help file or on the associated website! Many thanks to anyone who's able to offer any advice. Best wishes, Steve Subject: RE: [R] Use of colour in plots Date: Thu, 18 Sep 2008 14:52:57 +0200 From: [EMAIL PROTECTED] To: [EMAIL PROTECTED]; [EMAIL PROTECTED]; [EMAIL PROTECTED] CC: r-help@r-project.org Steve, Have a look at the ggplot2 package: library(ggplot2) ggplot(Jan, aes(x = PopDensity, y = Average.Burnt.Area.Fraction, colour = factor(Urban.Rural 1.25))) + geom_point() ir. Thierry Onkelinx Instituut voor natuur- en bosonderzoek / Research Institute for Nature and Forest Cel biometrie, methodologie en kwaliteitszorg / Section biometrics, methodology and quality assurance Gaverstraat 4 9500 Geraardsbergen Belgium tel. + 32 54/436 185 [EMAIL PROTECTED] www.inbo.be To call in the statistician after the experiment is done may be no more than asking him to perform a post-mortem examination: he may be able to say what the experiment died of. ~ Sir Ronald Aylmer Fisher The plural of anecdote is not data. ~ Roger Brinner 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 -Oorspronkelijk bericht- Van: [EMAIL PROTECTED] [mailto:[EMAIL PROTECTED] Namens Steve Murray Verzonden: donderdag 18 september 2008 13:58 Aan: Petr PIKAL; [EMAIL PROTECTED] CC: r-help@r-project.org Onderwerp: Re: [R] Use of colour in plots Dear all, I've finally got round to plotting my data and trying to apply colour (had some problems with the data which I needed to rectify first!). I'm having trouble however getting the colour to work as I'd hoped, despite the help offered in previous messages. Just to recap, and with more specifics this time, I have a data frame as follows: head(Jan) Latitude Longitude Urban.Rural
[R] Plot availability
Is it possible to see if a plot is already open before I call lines()? -- View this message in context: http://www.nabble.com/Plot-availability-tp19572437p19572437.html Sent from the R help mailing list archive at Nabble.com. __ R-help@r-project.org 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] misalignement of secondary axis in multhist
Hi everybody, I'm trying a multiple histogram, and I'd like to add on it a secondary axis with a line (cumulative frequencies, or wathever lines), and the 0 intercept doesnt coincide in y1 and y2, which dificult interpretation and makes presentation not nice. I had seen some related answer for boxplot, but I could not understand the code. Is there any general solution? Thanks in advance Angel #example ploting a line in a multhist a - rnorm(100) b- rnorm(100) x- list(a,b) require(plotrix) multhist(x) par(new = TRUE) plot(-2:2, 0:4, xaxt = n, yaxt = n, xlab=, ylab=,type =l)#see #difference in 0 in y1 and y2 axis(4) __ R-help@r-project.org 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] detecting null values in a CSV file
On a related note, I am trying to do some matching using conditional
statements. These NULL values are being brought in to my data frame as NA,
as expected, but in a conditional if() statement, I cannot compare then to a
integer value, it fails the program. Here is a small snippet of where the
error occurs.
while(col_loop1570)
{
data_filter - data[c(col_loop)]
print(data_filter)
if(data_filter == trigger)
{
trigger_count - trigger_count +1
}
col_loop - col_loop +1
}
Here: trigger_count, and trigger are both integers. The print statement was
debug to see why it was failing and this is what it returned:
snip
V1415
1 0
V1416
1 0
V1417
1 1
V1418
1 1
V1419
1 1
V1420
1NA
Error in if (data_filter == trigger) { :
missing value where TRUE/FALSE needed
Thanks for any help you can provide.
On Thu, Sep 18, 2008 at 2:12 PM, Hutchinson,David [PYR]
[EMAIL PROTECTED] wrote:
Try length(na.omit(the particular data column))
Here's an example:
data - runif(100,0,10)
data[runif(20,0,100)] - NA
file.contents - matrix(data, ncol = 5, byrow = TRUE)
for (i in 1:5) {
print (length(na.omit(file.contents[,i])))
}
-Original Message-
From: [EMAIL PROTECTED] [mailto:[EMAIL PROTECTED]
On Behalf Of Jason Thibodeau
Sent: Thursday, September 18, 2008 10:12 AM
To: r-help@r-project.org
Subject: [R] detecting null values in a CSV file
Hello all,
I have a CSV file, that is 2411 columns wide. There are certain
instances in
teh file, where null values are located. That is: two commas together,
without anything in the middle. In a certain section, the only possible
values are NULL, 0,1,and 2. I need to be able to detect these NULL's and
be
able to have them counted. For example, in a frequency table. How can I
accomplish this?
Thanks in advance for the help.
--
Jason Thibodeau
[[alternative HTML version deleted]]
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Re: [R] getting line breaks with xtable
Read the last line to every message to r-help to find out one reason you may be getting no responses. On Fri, Sep 19, 2008 at 9:39 AM, Erich Studerus [EMAIL PROTECTED] wrote: Sorry, for asking the same question again, but I got no reactions the last time. Maybe it was just overseen by the experts. I'm using the xtable function with Sweave and Lyx and I would like to know how to get automatic line breaks for long strings in a column of the table. I've learned from the Lyx wiki that the Latex command \linebreak produces table cells with multiple lines. I tried to insert \linebreak into the character string, but it didn't work out, because Sweave transforms it automatically to $\backslash$linebreak. Any help is highly appreciated. Erich __ R-help@r-project.org 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@r-project.org 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] intToUtf8
On 9/19/2008 9:32 AM, Christian Hennig wrote: Hi there, any explanation for this? intToUtf8(66) Error in intToUtf8(66) : argument 'x' must be an integer vector intToUtf8(c(66,55)) Error in intToUtf8(c(66, 55)) : argument 'x' must be an integer vector intToUtf8(c(66,55),multiple=TRUE) Error in intToUtf8(c(66, 55)) : argument 'x' must be an integer vector Errr... 66 and c(66,55) are as integer vectorish as anything can be, aren't they? No, they're numeric. integer here is a type, not the mathematical thing. This works: intToUtf8(as.integer(c(66,55))) The docs don't mention this requirement, and it does seem somewhat unnecessary; I'll look into it. version _ platform i686-pc-linux-gnu arch i686 os linux-gnu system i686, linux-gnu status major 2 minor 6.0 year 2007 month 10 day03 svn rev43063 language R version.string R version 2.6.0 (2007-10-03) You're lucky I didn't read to the end of your message: that's a pretty old version. Please test on current versions before reporting problems. Duncan Murdoch __ R-help@r-project.org 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] intToUtf8
Dear Duncan, No, they're numeric. integer here is a type, not the mathematical thing. This works: intToUtf8(as.integer(c(66,55))) The docs don't mention this requirement, and it does seem somewhat unnecessary; I'll look into it. Thanks! You're lucky I didn't read to the end of your message: that's a pretty old version. Please test on current versions before reporting problems. Sorry but people won't always install the most recent version when running into smallish problems like this. Particularly not when they're working on machines where they are not superuser. We have other things to do than updating every two months. I may be egoist here but I think the list has to live with requests concerning old versions. (I use version so that people can tell me has been fixed in the meantime if this is the case.) If you personally don't respond to them, that's your choice of course. But it doesn't work as a policy. Regards, Christian *** --- *** Christian Hennig University College London, Department of Statistical Science Gower St., London WC1E 6BT, phone +44 207 679 1698 [EMAIL PROTECTED], www.homepages.ucl.ac.uk/~ucakche __ R-help@r-project.org 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] Use of colour in plots
Sorry - I should've maybe also pointed out that the command I've been trying to use is: alpha(col=green, 1/10) On its own this results in the following error: [1] #00FF001A and I haven't been able to successfully incorporate it into the main formula just yet (please see my previous message). Without wanting to get too far ahead of myself, is there also a way of making the red points transparent too? (within this command - I've tried using '' but this results in an error). Many thanks again for any advice you can offer, Steve From: [EMAIL PROTECTED] To: [EMAIL PROTECTED]; r-help@r-project.org Subject: RE: [R] Use of colour in plots Date: Fri, 19 Sep 2008 13:45:43 + Thierry, Thanks - I've had a look into using the transparency option, but can't seem to work out where to place it within the command I'm using: ggplot(Jan, aes(x = PopDensity, y = Average.Burnt.Area.Fraction, colour = factor(Urban.Rural 1.25))) + geom_point() I'm assuming that it has to go in the 'aes' section somewhere, but I seem to be encountering errors wherever I insert it. This doesn't seem to be mentioned in the book, so do you have any tips?! Also, out of interest, what does the 'geom_point()' command do? Thanks again, Steve Subject: RE: [R] Use of colour in plots Date: Fri, 19 Sep 2008 10:31:58 +0200 From: [EMAIL PROTECTED] To: [EMAIL PROTECTED]; r-help@r-project.org Steve, - Use tranparancy to prevent overplotting: more details on p. 16 of the ggplot2 book: http://had.co.nz/ggplot2/book/ - You can choose your own colour with scale_manual(): http://had.co.nz/ggplot2/scale_manual.html - The backgroundcolor can be set with ggopt(background.color = white): http://rweb.stat.umn.edu/R/library/ggplot/html/build-options-8a.html HTH, Thierry ir. Thierry Onkelinx Instituut voor natuur- en bosonderzoek / Research Institute for Nature and Forest Cel biometrie, methodologie en kwaliteitszorg / Section biometrics, methodology and quality assurance Gaverstraat 4 9500 Geraardsbergen Belgium tel. + 32 54/436 185 [EMAIL PROTECTED] www.inbo.be To call in the statistician after the experiment is done may be no more than asking him to perform a post-mortem examination: he may be able to say what the experiment died of. ~ Sir Ronald Aylmer Fisher The plural of anecdote is not data. ~ Roger Brinner 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 -Oorspronkelijk bericht- Van: Steve Murray [mailto:[EMAIL PROTECTED] Verzonden: donderdag 18 september 2008 19:08 Aan: r-help@r-project.org; ONKELINX, Thierry; [EMAIL PROTECTED]; [EMAIL PROTECTED]; [EMAIL PROTECTED] Onderwerp: RE: [R] Use of colour in plots Dear Thierry and all, I've tried out ggplot from the ggplot2 package and it seems to provide much more favourable results! Just a few questions I have after consulting the 'help' file for ggplot. Is there a way of preventing overplotting? Some of the red points are being obscured by the green ones. I've tried changing the size of the points (using size=1) but this doesn't resolve the issue, as there are many points quite densely packed in some parts of the graph. Also how would I change the colours if I wished (for future plots of a similar format)? And how do you customise the legend? Finally, is there a way of changing the grey background of the graph to white? Sorry for all the questions, it's just that I'm new to the ggplot2 package and can't find the answers in the help file or on the associated website! Many thanks to anyone who's able to offer any advice. Best wishes, Steve Subject: RE: [R] Use of colour in plots Date: Thu, 18 Sep 2008 14:52:57 +0200 From: [EMAIL PROTECTED] To: [EMAIL PROTECTED]; [EMAIL PROTECTED]; [EMAIL PROTECTED] CC: r-help@r-project.org Steve, Have a look at the ggplot2 package: library(ggplot2) ggplot(Jan, aes(x = PopDensity, y = Average.Burnt.Area.Fraction, colour = factor(Urban.Rural 1.25))) + geom_point() ir. Thierry Onkelinx Instituut voor natuur- en bosonderzoek / Research Institute for Nature and Forest Cel biometrie, methodologie en kwaliteitszorg / Section biometrics, methodology and quality assurance Gaverstraat 4 9500 Geraardsbergen Belgium tel. + 32 54/436 185 [EMAIL PROTECTED] www.inbo.be To call in the statistician after the experiment is done may be no more than asking him to perform a post-mortem examination: he may be able to say what the experiment died of. ~ Sir Ronald Aylmer Fisher The plural of anecdote is not data. ~ Roger Brinner 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
Re: [R] Plot availability
On 9/19/2008 9:32 AM, john crepezzi wrote: Is it possible to see if a plot is already open before I call lines()? I don't think so. You can see if a graphics device is open by looking at dev.cur(), but I don't think there's a test for plot.new(). I'd just wrap the call in try() if you're not sure it will work. Duncan Murdoch __ R-help@r-project.org 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] getting line breaks with xtable
Ok. Sorry, here's a reproducible example: library(xtable) x-as.table(cbind(1:3,rep(this is an example for a long character string that I want break into several lines))) xtable(x) Regards Erich -Ursprüngliche Nachricht- Von: Gabor Grothendieck [mailto:[EMAIL PROTECTED] Gesendet: Freitag, 19. September 2008 15:50 An: Erich Studerus Cc: r-help@r-project.org Betreff: Re: [R] getting line breaks with xtable Read the last line to every message to r-help to find out one reason you may be getting no responses. On Fri, Sep 19, 2008 at 9:39 AM, Erich Studerus [EMAIL PROTECTED] wrote: Sorry, for asking the same question again, but I got no reactions the last time. Maybe it was just overseen by the experts. I'm using the xtable function with Sweave and Lyx and I would like to know how to get automatic line breaks for long strings in a column of the table. I've learned from the Lyx wiki that the Latex command \linebreak produces table cells with multiple lines. I tried to insert \linebreak into the character string, but it didn't work out, because Sweave transforms it automatically to $\backslash$linebreak. Any help is highly appreciated. Erich __ R-help@r-project.org 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@r-project.org 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] Use of colour in plots
Steve, You want something like this: library(ggplot2) n - 1000 dataset - data.frame(x = round(rnorm(n), 2), y = round(rnorm(n), 1), z = rnorm(n)) ggplot(dataset, aes(x = x, y = y, colour = factor(z 1))) + geom_point() + scale_colour_manual(values = c(alpha(red, 1/4), green)) HTH, Thierry ir. Thierry Onkelinx Instituut voor natuur- en bosonderzoek / Research Institute for Nature and Forest Cel biometrie, methodologie en kwaliteitszorg / Section biometrics, methodology and quality assurance Gaverstraat 4 9500 Geraardsbergen Belgium tel. + 32 54/436 185 [EMAIL PROTECTED] www.inbo.be To call in the statistician after the experiment is done may be no more than asking him to perform a post-mortem examination: he may be able to say what the experiment died of. ~ Sir Ronald Aylmer Fisher The plural of anecdote is not data. ~ Roger Brinner 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 -Oorspronkelijk bericht- Van: Steve Murray [mailto:[EMAIL PROTECTED] Verzonden: vrijdag 19 september 2008 16:01 Aan: ONKELINX, Thierry; r-help@r-project.org Onderwerp: RE: [R] Use of colour in plots Sorry - I should've maybe also pointed out that the command I've been trying to use is: alpha(col=green, 1/10) On its own this results in the following error: [1] #00FF001A and I haven't been able to successfully incorporate it into the main formula just yet (please see my previous message). Without wanting to get too far ahead of myself, is there also a way of making the red points transparent too? (within this command - I've tried using '' but this results in an error). Many thanks again for any advice you can offer, Steve From: [EMAIL PROTECTED] To: [EMAIL PROTECTED]; r-help@r-project.org Subject: RE: [R] Use of colour in plots Date: Fri, 19 Sep 2008 13:45:43 + Thierry, Thanks - I've had a look into using the transparency option, but can't seem to work out where to place it within the command I'm using: ggplot(Jan, aes(x = PopDensity, y = Average.Burnt.Area.Fraction, colour = factor(Urban.Rural 1.25))) + geom_point() I'm assuming that it has to go in the 'aes' section somewhere, but I seem to be encountering errors wherever I insert it. This doesn't seem to be mentioned in the book, so do you have any tips?! Also, out of interest, what does the 'geom_point()' command do? Thanks again, Steve Subject: RE: [R] Use of colour in plots Date: Fri, 19 Sep 2008 10:31:58 +0200 From: [EMAIL PROTECTED] To: [EMAIL PROTECTED]; r-help@r-project.org Steve, - Use tranparancy to prevent overplotting: more details on p. 16 of the ggplot2 book: http://had.co.nz/ggplot2/book/ - You can choose your own colour with scale_manual(): http://had.co.nz/ggplot2/scale_manual.html - The backgroundcolor can be set with ggopt(background.color = white): http://rweb.stat.umn.edu/R/library/ggplot/html/build-options-8a.html HTH, Thierry ir. Thierry Onkelinx Instituut voor natuur- en bosonderzoek / Research Institute for Nature and Forest Cel biometrie, methodologie en kwaliteitszorg / Section biometrics, methodology and quality assurance Gaverstraat 4 9500 Geraardsbergen Belgium tel. + 32 54/436 185 [EMAIL PROTECTED] www.inbo.be To call in the statistician after the experiment is done may be no more than asking him to perform a post-mortem examination: he may be able to say what the experiment died of. ~ Sir Ronald Aylmer Fisher The plural of anecdote is not data. ~ Roger Brinner 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 -Oorspronkelijk bericht- Van: Steve Murray [mailto:[EMAIL PROTECTED] Verzonden: donderdag 18 september 2008 19:08 Aan: r-help@r-project.org; ONKELINX, Thierry; [EMAIL PROTECTED]; [EMAIL PROTECTED]; [EMAIL PROTECTED] Onderwerp: RE: [R] Use of colour in plots Dear Thierry and all, I've tried out ggplot from the ggplot2 package and it seems to provide much more favourable results! Just a few questions I have after consulting the 'help' file for ggplot. Is there a way of preventing overplotting? Some of the red points are being obscured by the green ones. I've tried changing the size of the points (using size=1) but this doesn't resolve the issue, as there are many points quite densely packed in some parts of the graph. Also how would I change the colours if I wished (for future plots of a similar format)? And how do you customise the legend? Finally, is there a way of changing the grey background of the graph to white? Sorry for all the questions, it's just that I'm new to the ggplot2 package and can't find the answers in the help
Re: [R] intToUtf8
On 9/19/2008 9:58 AM, Christian Hennig wrote: Dear Duncan, No, they're numeric. integer here is a type, not the mathematical thing. This works: intToUtf8(as.integer(c(66,55))) The docs don't mention this requirement, and it does seem somewhat unnecessary; I'll look into it. Thanks! You're lucky I didn't read to the end of your message: that's a pretty old version. Please test on current versions before reporting problems. Sorry but people won't always install the most recent version when running into smallish problems like this. Particularly not when they're working on machines where they are not superuser. We have other things to do than updating every two months. I may be egoist here but I think the list has to live with requests concerning old versions. (I use version so that people can tell me has been fixed in the meantime if this is the case.) If you personally don't respond to them, that's your choice of course. But it doesn't work as a policy. It works for us. Duncan Murdoch __ R-help@r-project.org 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 do knn regression?
Date: Fri, 19 Sep 2008 07:00:33 + (UTC) From: Hans W. Borchers [EMAIL PROTECTED] Subject: Re: [R] How to do knn regression? To: [EMAIL PROTECTED] Message-ID: [EMAIL PROTECTED] Content-Type: text/plain; charset=us-ascii Shengqiao Li shli at stat.wvu.edu writes: Hello, I want to do regression or missing value imputation by knn. I searched r-help mailing list. This question was asked in 2005. ksmooth and loess were recommended. But my case is different. I have many predictors (p20) and I really want try knn with a given k. ksmooth and loess use band width to define neighborhood size. This contrasts to knn's variable band width via fixing a k. Are there any such functions I can use in R packages? The R package 'knnFinder' provides a nearest neighbor search based on the approach through kd-tree data structures. Therefore, it is extremely fast even for very large data sets. It returns as many neighbors as you need and can also be used, e.g., for determining distance-based outliers. Thanks for your info. But it seems that there are problems to use knnFinder. knnFinder doesn't distinguish Test data and Train data. It searches in all data. New data with unknow Y's may appear in neighbors in the X space. The mask arg. seems not solving this problems. In addtion, I notice that there are several other possible problems with knnFinder: (1) Ties are ignored. (2) knnFinder is slower than class::knn when number of variables is relatively small, eg. 70. (3) Memory leakage. (4) Maximum distance is small. (5) One extra column is needed. I rewrote knnFinder code to solve the last three problems for other purposes for which the self-match is not allowed. But self-math option is not a function parameter. It's a MACRO variable. So this option cannot be changed once the library is compiled. For regression, ties should be used. I have to compile two versions. This is not neat. Any other convenient ways? Hans Werner Borchers ABB Corporate Research Your help is highly appreciated. Shengqiao Li __ R-help at r-project.org 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@r-project.org 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 keep up with R?
The good thing about training and evangelization ...
I spent quite a lot of time evangelizing about R when I first started my
current job. Eventually my boss told me I was an R-Soul, or something
that sounded like that anyway. ; )
Regards,
Richie.
Mathematical Sciences Unit
HSL
ATTENTION:
This message contains privileged and confidential inform...{{dropped:20}}
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Re: [R] How to show complete time values in a plot x axis
Sorry, I thought the time values were equal-spaced...
Regards,
Yihui
--
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Phone: +86-(0)10-82509086 Fax: +86-(0)10-82509086
Mobile: +86-15810805877
Homepage: http://www.yihui.name
School of Statistics, Room 1037, Mingde Main Building,
Renmin University of China, Beijing, 100872, China
On Fri, Sep 19, 2008 at 3:10 AM, Sébastien Durand
[EMAIL PROTECTED] wrote:
Hello,
I have the following data and I try to properly
import it in R and plot the 4th column relative to time
1 2008-249 17:44:17.973-2.27 : Accepted
2 2008-249 17:44:18.014-2.28 : Accepted
3 2008-249 17:44:18.064-2.29 : Accepted
4 2008-249 17:44:18.123-2.29 : Accepted
5 2008-249 17:44:18.174-2.29 : Accepted
6 2008-249 17:44:18.225-2.29 : Accepted
7 2008-249 17:44:18.274-2.28 : Accepted
8 2008-249 17:44:18.325-2.28 : Accepted
9 2008-249 17:44:18.375-2.28 : Accepted
10 2008-249 17:44:18.424-2.27 : Accepted
11 2008-249 17:44:18.475-2.26 : Accepted
12 2008-249 17:44:18.514-2.24 : Accepted
13 2008-249 17:44:18.565-2.23 : Accepted
14 2008-249 17:44:18.615-2.20 : Accepted
15 2008-249 17:44:18.674-2.17 : Accepted
16 2008-249 17:44:18.725-2.15 : Accepted
17 2008-249 17:44:18.774-2.12 : Accepted
18 2008-249 17:44:18.825-2.09 : Accepted
19 2008-249 17:44:18.875-2.06 : Accepted
20 2008-249 17:44:18.925-2.03 : Accepted
21 2008-249 17:44:18.975-2.00 : Accepted
22 2008-249 17:44:19.026-1.97 : Accepted
23 2008-249 17:44:19.055-1.95 : Accepted
#I copy the previous data then in R dat=readLines(clipboard)
options(digits.secs=6)
tmp=unlist(lapply(dat,function(x){unlist(strsplit(x,\\
+,perl=TRUE))[3:5]}))
tmp=matrix(tmp,ncol=3,byrow=TRUE)
tmp=cbind(paste(tmp[,1],tmp[,2]),tmp[,3])
time=strptime(tmp[,1], format=%Y-%j %H:%M:%OS)
value=as.numeric(tmp[,2])
plot(time,value)
#How can I show in the x axis the complete time values including the
decimals.
Thanks a lot
N.B.: I am running the lastest version of R and using it under Windows XP
S.
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and provide commented, minimal, self-contained, reproducible code.
[R] plot order in multi-panel figure
Hi, Does anyone know if there is a way to 'reset the plot number' on a traditional graphics device? For instance, I want to have two plots on stacked top of each other (mfrow=c(2,1)) but with underlying grid lines spanning both figures vertically. I can put the grid lines on top if I add them last: par(mfrow=c(2,1)) plot.new() plot.window(c(0,1),c(0,1)) for( i in 1:2) axis(i) box(bty=L) rect(0.2,0.2,0.5,0.5,col=8) plot.new() plot.window(c(0,1),c(0,1)) for( i in 1:2) axis(i) box(bty=L) par(mfrow=c(1,1)) plot.window(c(0,1),c(0,1)) abline(v=seq(0,1,by=0.2),lty=3) But ideally I would like to draw the grid lines before drawing other objects on top of it, but something like par(mfrow=c(1,1)) plot.new() plot.window(c(0,1),c(0,1)) abline(v=seq(0,1,by=0.2),lty=3) par(mfrow=c(2,1)) plot.window(c(0,1),c(0,1)) for( i in 1:2) axis(i) box(bty=L) rect(0.2,0.2,0.5,0.5,col=8) plot.new() plot.window(c(0,1),c(0,1)) for( i in 1:2) axis(i) box(bty=L) does not work because the first of the two plots appears in the bottom of the figure and not the top (as it is interpreted as the second of the mfrow=c(2,1) plots). I've also played around with layout() but I also get the same behavior. I suspect I can do this eventually with grid graphics but was wondering if it is also possible in traditional graphics. I would appreciate any help - thanks very much! Stephen __ R-help@r-project.org 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] getting line breaks with xtable
Try placing your text in a parbox:
x-as.table(cbind(1:3,rep(\\parbox{5cm}{this is an example for a long
character string that I want break into several lines})))
print(xtable(x), sanitize.text = force)
You may need to fix up the vertical spacing as well.
On Fri, Sep 19, 2008 at 10:11 AM, Erich Studerus
[EMAIL PROTECTED] wrote:
Ok. Sorry, here's a reproducible example:
library(xtable)
x-as.table(cbind(1:3,rep(this is an example for a long character string
that I want break into several lines)))
xtable(x)
Regards
Erich
-Ursprüngliche Nachricht-
Von: Gabor Grothendieck [mailto:[EMAIL PROTECTED]
Gesendet: Freitag, 19. September 2008 15:50
An: Erich Studerus
Cc: r-help@r-project.org
Betreff: Re: [R] getting line breaks with xtable
Read the last line to every message to r-help to find out
one reason you may be getting no responses.
On Fri, Sep 19, 2008 at 9:39 AM, Erich Studerus
[EMAIL PROTECTED] wrote:
Sorry, for asking the same question again, but I got no reactions the last
time. Maybe it was just overseen by the experts.
I'm using the xtable function with Sweave and Lyx and I would like to know
how to get automatic line breaks for long strings in a column of the
table.
I've learned from the Lyx wiki that the Latex command \linebreak produces
table cells with multiple lines. I tried to insert \linebreak into the
character string, but it didn't work out, because Sweave transforms it
automatically to $\backslash$linebreak.
Any help is highly appreciated.
Erich
__
R-help@r-project.org 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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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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PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.
Re: [R] getting line breaks with xtable
I don't believe that \linebreak will work within a tabular environment
as you expect here. Plus, be aware, that it is print.xtable() and not
LaTeX that is adding the additional $\backslash$ characters, as part of
the text sanitization process.
I think that you basically have two options:
1. Define a so-called 'p' column for the wide text column, which
essentially creates a paragraph environment within each cell in that
column, and therefore allows for line wrapping. See the 'align' argument
in ?xtable. So use something like this:
xtable(x, align = lrp{3in})
'p' columns can have undesirable effects as well depending upon certain
details, so you can also look at the following option.
2. Use a LaTeX macro and embed that in the character vector. I have
created three such macros, one each for Right, Left and Center
justification of the text within the cell:
[EMAIL PROTECTED]@{}}#1\end{tabular}}
[EMAIL PROTECTED]@{}}#1\end{tabular}}
[EMAIL PROTECTED]@{}}#1\end{tabular}}
Put these in your .Rnw file, after the \begin{document} declaration.
This essentially creates a tabular environment within the cell in the
parent table. Then modify your long vectors by using something like:
# See ?strwrap. Wrap each vector at max char length 20
LVec - lapply(x[, 2], strwrap, 20)
LVec
$A
[1] this is an example for a long character string
[4] that I want break into several lines
$B
[1] this is an example for a long character string
[4] that I want break into several lines
$C
[1] this is an example for a long character string
[4] that I want break into several lines
# Beware of any line wrapping in the e-mail here
# Add in the line breaks and macro text
FinalVec - paste(\\multilineL{, sapply(LVec, paste, collapse =
), })
FinalVec
[1] \\multilineL{ this is an examplefor a longcharacter
stringthat I want breakinto several lines }
[2] \\multilineL{ this is an examplefor a longcharacter
stringthat I want breakinto several lines }
[3] \\multilineL{ this is an examplefor a longcharacter
stringthat I want breakinto several lines }
# Modify the second column in the table
x[, 2] - FinalVec
Now use:
print(xtable(x), sanitize.text.function = function(x){x})
which will output the table and leave the LaTeX directives intact. Watch
line wrapping in the e-mail again here:
% latex table generated in R 2.7.2 by xtable 1.5-3 package
% Fri Sep 19 09:54:10 2008
\begin{table}[ht]
\begin{center}
\begin{tabular}{rll}
\hline
A B \\
\hline
A 1 \multilineL{ this is an example\\for a long\\character
string\\that I want break\\into several lines } \\
B 2 \multilineL{ this is an example\\for a long\\character
string\\that I want break\\into several lines } \\
C 3 \multilineL{ this is an example\\for a long\\character
string\\that I want break\\into several lines } \\
\hline
\end{tabular}
\end{center}
\end{table}
HTH,
Marc Schwartz
on 09/19/2008 09:11 AM Erich Studerus wrote:
Ok. Sorry, here's a reproducible example:
library(xtable)
x-as.table(cbind(1:3,rep(this is an example for a long character string
that I want break into several lines)))
xtable(x)
Regards
Erich
-Ursprüngliche Nachricht-
Von: Gabor Grothendieck [mailto:[EMAIL PROTECTED]
Gesendet: Freitag, 19. September 2008 15:50
An: Erich Studerus
Cc: r-help@r-project.org
Betreff: Re: [R] getting line breaks with xtable
Read the last line to every message to r-help to find out
one reason you may be getting no responses.
On Fri, Sep 19, 2008 at 9:39 AM, Erich Studerus
[EMAIL PROTECTED] wrote:
Sorry, for asking the same question again, but I got no reactions the last
time. Maybe it was just overseen by the experts.
I'm using the xtable function with Sweave and Lyx and I would like to know
how to get automatic line breaks for long strings in a column of the
table.
I've learned from the Lyx wiki that the Latex command \linebreak produces
table cells with multiple lines. I tried to insert \linebreak into the
character string, but it didn't work out, because Sweave transforms it
automatically to $\backslash$linebreak.
Any help is highly appreciated.
Erich
__
R-help@r-project.org 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] plot order in multi-panel figure
Stephen Tucker brown_emu at yahoo.com writes: Hi, Does anyone know if there is a way to 'reset the plot number' on a traditional graphics device? For instance, I want to have two plots on stacked top of each other (mfrow=c (2,1)) but with underlying grid lines spanning both figures vertically. Below is one approach using split.screen. See ?split.screen for details. split.screen(c(1,1)) [1] 1 screen(1) plot.window(c(0,1),c(0,1)) abline(v=seq(0,1,by=0.2),lty=3) split.screen(c(2,1)) [1] 2 3 screen(2) plot.new() plot.window(c(0,1),c(0,1)) for(i in 1:2) axis(i) box(bty=L) rect(0.2,0.2,0.5,0.5,col=8) screen(3) plot.new() plot.window(c(0,1),c(0,1)) for( i in 1:2) axis(i) box(bty=L) close.screen() [1] 1 2 3 Mark Lyman __ R-help@r-project.org 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] Multiple logical operations in a subscript
Peter showed you the %in% operator, you may also want to look at the subset, transform, with, and within functions for future use as ways to reduce the need to type the name of an object multiple times. Hope this helps, -- Gregory (Greg) L. Snow Ph.D. Statistical Data Center Intermountain Healthcare [EMAIL PROTECTED] 801.408.8111 -Original Message- From: [EMAIL PROTECTED] [mailto:[EMAIL PROTECTED] project.org] On Behalf Of Mark Na Sent: Thursday, September 18, 2008 6:11 PM To: [EMAIL PROTECTED] Subject: [R] Multiple logical operations in a subscript Hello, I would like to select cases using multiple logical operations (e.g. X or Y or Z) without having to repeat the dataframe$variable within the subscript. My working code (with a single logical operator) currently looks like this: dataframe$newvariable[data$oldvariable==X]-group1 I thought this next line of code might do what I wanted, but it doesn't: dataframe$newvariable[data$oldvariable==X | Y | Z]-group1 I'd appreciate any suggestions. I've tried playing around with grep, but can't make it work. Thanks! Mark __ R-help@r-project.org 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@r-project.org 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] Lines between panels in lattice
Hello, I have a multi-page display each consisting of two-panels above each other. I need to draw a line from the top panel to bottom panel. Using current.vpTree() i find that plot1.panel.1.2.vp and plot1.panel.1.1.vp are the top and bottom ones respectively. I am using the following code(inspired by Paul Murrell's R Graphics) to draw a line. (All the co-ordinates lie well within the ranges of the respective panels) seekViewport(plot1.panel.1.2.vp) grid.move.to(unit(0.72,native),unit(3.8,native)) seekViewport(plot1.panel.1.1.vp) grid.line.to(unit(1.2,native),unit(3.5,native)) However, I can see the line in the bottom panel, but nothing in the top. Is there some clipping going on? Thanks Saptarshi Saptarshi Guha | [EMAIL PROTECTED] | http://www.stat.purdue.edu/~sguha [[alternative HTML version deleted]] __ R-help@r-project.org 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] Use of colour in plots
Hi Thierry and all, Thanks very much for your suggestion. I've given it a go and played around with the transparency values, but seem to be having a problem in that some of the red values are made transparent, even though there are no green values being overplotted! The code I used to display the image was: ggplot(Jan, aes(x = Jan[,4], y = Jan[,5], colour = factor(Jan$Urban.Rural 1.25))) + geom_point() + scale_colour_manual(values = c(alpha(red,1/10), green)) Do you have any ideas to put me on the right tracks with this? Thanks again for your help, Steve Subject: RE: [R] Use of colour in plots Date: Fri, 19 Sep 2008 16:15:39 +0200 From: [EMAIL PROTECTED] To: [EMAIL PROTECTED]; r-help@r-project.org Steve, You want something like this: library(ggplot2) n - 1000 dataset - data.frame(x = round(rnorm(n), 2), y = round(rnorm(n), 1), z = rnorm(n)) ggplot(dataset, aes(x = x, y = y, colour = factor(z 1))) + geom_point() + scale_colour_manual(values = c(alpha(red, 1/4), green)) HTH, Thierry ir. Thierry Onkelinx Instituut voor natuur- en bosonderzoek / Research Institute for Nature and Forest Cel biometrie, methodologie en kwaliteitszorg / Section biometrics, methodology and quality assurance Gaverstraat 4 9500 Geraardsbergen Belgium tel. + 32 54/436 185 [EMAIL PROTECTED] www.inbo.be To call in the statistician after the experiment is done may be no more than asking him to perform a post-mortem examination: he may be able to say what the experiment died of. ~ Sir Ronald Aylmer Fisher The plural of anecdote is not data. ~ Roger Brinner 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 -Oorspronkelijk bericht- Van: Steve Murray [mailto:[EMAIL PROTECTED] Verzonden: vrijdag 19 september 2008 16:01 Aan: ONKELINX, Thierry; r-help@r-project.org Onderwerp: RE: [R] Use of colour in plots Sorry - I should've maybe also pointed out that the command I've been trying to use is: alpha(col=green, 1/10) On its own this results in the following error: [1] #00FF001A and I haven't been able to successfully incorporate it into the main formula just yet (please see my previous message). Without wanting to get too far ahead of myself, is there also a way of making the red points transparent too? (within this command - I've tried using '' but this results in an error). Many thanks again for any advice you can offer, Steve From: [EMAIL PROTECTED] To: [EMAIL PROTECTED]; r-help@r-project.org Subject: RE: [R] Use of colour in plots Date: Fri, 19 Sep 2008 13:45:43 + Thierry, Thanks - I've had a look into using the transparency option, but can't seem to work out where to place it within the command I'm using: ggplot(Jan, aes(x = PopDensity, y = Average.Burnt.Area.Fraction, colour = factor(Urban.Rural 1.25))) + geom_point() I'm assuming that it has to go in the 'aes' section somewhere, but I seem to be encountering errors wherever I insert it. This doesn't seem to be mentioned in the book, so do you have any tips?! Also, out of interest, what does the 'geom_point()' command do? Thanks again, Steve Subject: RE: [R] Use of colour in plots Date: Fri, 19 Sep 2008 10:31:58 +0200 From: [EMAIL PROTECTED] To: [EMAIL PROTECTED]; r-help@r-project.org Steve, - Use tranparancy to prevent overplotting: more details on p. 16 of the ggplot2 book: http://had.co.nz/ggplot2/book/ - You can choose your own colour with scale_manual(): http://had.co.nz/ggplot2/scale_manual.html - The backgroundcolor can be set with ggopt(background.color = white): http://rweb.stat.umn.edu/R/library/ggplot/html/build-options-8a.html HTH, Thierry ir. Thierry Onkelinx Instituut voor natuur- en bosonderzoek / Research Institute for Nature and Forest Cel biometrie, methodologie en kwaliteitszorg / Section biometrics, methodology and quality assurance Gaverstraat 4 9500 Geraardsbergen Belgium tel. + 32 54/436 185 [EMAIL PROTECTED] www.inbo.be To call in the statistician after the experiment is done may be no more than asking him to perform a post-mortem examination: he may be able to say what the experiment died of. ~ Sir Ronald Aylmer Fisher The plural of anecdote is not data. ~ Roger Brinner 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 -Oorspronkelijk bericht- Van: Steve Murray [mailto:[EMAIL PROTECTED] Verzonden: donderdag 18 september 2008 19:08 Aan: r-help@r-project.org; ONKELINX, Thierry; [EMAIL PROTECTED]; [EMAIL PROTECTED]; [EMAIL PROTECTED] Onderwerp: RE: [R] Use of colour in plots Dear Thierry and all,
[R] ggplot2 - accessing legend data
Hi All, I am trying to build a set of plots, and build a common legend to all of them. Because I want to use a multi-line, multi-column legend layout, I cannot use the common ggplot2 legends (if I can, please tell me how). So, I would like to know how can I access the properties of a legend, so that I can extract the colours/symbols/patterns and the corresponding labels, so that I can then build my own legend. I tried using gglegend, but I cannot find out how to access its properties. Thanks, Pedro -- View this message in context: http://www.nabble.com/ggplot2---accessing-legend-data-tp19575314p19575314.html Sent from the R help mailing list archive at Nabble.com. __ R-help@r-project.org 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] Multiple logical operations in a subscript
On 19-Sep-08 16:03:45, Greg Snow wrote: Peter showed you the %in% operator, you may also want to look at the subset, transform, with, and within functions for future use as ways to reduce the need to type the name of an object multiple times. Hope this helps, Let me add my perhaps very simple-minded suggestion. What I usually do in such a situation is to define a working variable with a short name. So, in the case of your example: dataframe$newvariable[data$oldvariable==X | Y | Z]-group1 I would: Old-data$oldvariable dataframe$newvariable[(Old==X)|(Old==Y)|(Old==Z)] - group1 which is what I take your intended meaning to be -- if so, then your formulation of the condition is wrong, since data$oldvariable==X | Y | Z will first (because of precedence rules -- see ?Syntax) evaluate data$oldvariable==X (to TRUE or FALSE), and then try to OR (|) this with the values of X and Z. Since these are character strings, the operation is not permitted: Y|Z Error in Y | Z : operations are possible only for numeric or logical types On the other hand: 1|(-2)|(3.14159) [1] TRUE Hoping this helps, Ted. -Original Message- From: [EMAIL PROTECTED] [mailto:[EMAIL PROTECTED] project.org] On Behalf Of Mark Na Sent: Thursday, September 18, 2008 6:11 PM To: [EMAIL PROTECTED] Subject: [R] Multiple logical operations in a subscript Hello, I would like to select cases using multiple logical operations (e.g. X or Y or Z) without having to repeat the dataframe$variable within the subscript. My working code (with a single logical operator) currently looks like this: dataframe$newvariable[data$oldvariable==X]-group1 I thought this next line of code might do what I wanted, but it doesn't: dataframe$newvariable[data$oldvariable==X | Y | Z]-group1 I'd appreciate any suggestions. I've tried playing around with grep, but can't make it work. Thanks! Mark __ R-help@r-project.org 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@r-project.org 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. E-Mail: (Ted Harding) [EMAIL PROTECTED] Fax-to-email: +44 (0)870 094 0861 Date: 19-Sep-08 Time: 17:28:20 -- XFMail -- __ R-help@r-project.org 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] evaluate return values of commands executed with system()
Hi I would like to check the return value of commands executed with system() I am using Linux (Ubuntu Hardy) and I am executing GRASS commands and would like to call stop() when they return an error (i.e. return code = 1). Thanks Rainer -- Rainer M. Krug, PhD (Conservation Ecology, SUN), MSc (Conservation Biology, UCT), Dipl. Phys. (Germany) Centre of Excellence for Invasion Biology Faculty of Science Natural Sciences Building Private Bag X1 University of Stellenbosch Matieland 7602 South Africa __ R-help@r-project.org 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] Novice question about getting data into R
I found it easy to use R when typing data manually into it. Now I need to read data from a file, and I get the following errors: refdata = read.table(K:\\MerchantData\\RiskModel\\refund_distribution.csv, header = TRUE) Error in scan(file, what, nmax, sep, dec, quote, skip, nlines, na.strings, : line 1 did not have 42 elements refdata = read.table(K:\\MerchantData\\RiskModel\\refund_distribution.csv) Error in scan(file, what, nmax, sep, dec, quote, skip, nlines, na.strings, : line 2 did not have 42 elements (I'd tried the first version above because the first record has column names.) First, I don't know why R expects 42 elements in a record. There is one column for a time variable (weeks since a given week of samples were taken) and one for each week of sampling in the data file (Week 18 through Week 37 inclusive). And there is only 19 rows. The samples represented by the columns are independant, and the numbers in the columns are the fraction of events sampled that result in an event of another kind in the week since the sample was taken. The samples are not the same size, and starting with week 20, the number of values progressively gets smaller since there have been fewer than 37 weeks since the samples were taken. I can show you the contents of the data file if you wish. It is unremarkable, csv, with strings used for column names enclosed in double quotes. I don't have to manually separate the samples into their own files do I? I was hoping to write a function that estimates the density function that best fits each sample individually, and then iterate of the columns, applying that function to each in turn. What is the best way to handle this? Thanks Ted -- View this message in context: http://www.nabble.com/Novice-question-about-getting-data-into-R-tp19576065p19576065.html Sent from the R help mailing list archive at Nabble.com. __ R-help@r-project.org 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] Cbind help
Hi there I want to cbind a vector(contains 20 values) to a dataframe containg (18 rows).The missing value in the dataframe is however a repeated values but still i want to retain the repeats in the vector and the dataframe values can even get enterd twice. how should i go about it Example: Vector(contains repeating entry) ab de dc ab be dataframe(unique entry) ab a b c d e dc e f g h i de l m n o p Result : vector D.F ab ab a b c d e dc dc e f g h i ab ab a b c d e de de l m n o p Ramya -- View this message in context: http://www.nabble.com/Cbind-help-tp19576177p19576177.html Sent from the R help mailing list archive at Nabble.com. __ R-help@r-project.org 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] Novice question about getting data into R
Ted Byers wrote: I found it easy to use R when typing data manually into it. Now I need to read data from a file, and I get the following errors: refdata = read.table(K:\\MerchantData\\RiskModel\\refund_distribution.csv, header = TRUE) Error in scan(file, what, nmax, sep, dec, quote, skip, nlines, na.strings, : line 1 did not have 42 elements refdata = read.table(K:\\MerchantData\\RiskModel\\refund_distribution.csv) Error in scan(file, what, nmax, sep, dec, quote, skip, nlines, na.strings, : line 2 did not have 42 elements (I'd tried the first version above because the first record has column names.) First, I don't know why R expects 42 elements in a record. Hard to tell. One guess is that you have 42 header names. Spaces inside any of them? Is this really a CSV file? (As in Comma Separated Values). If so, you at least need to set the sep= argument, but how about read.csv()? or if TAB separated, read.delim(). There is one column for a time variable (weeks since a given week of samples were taken) and one for each week of sampling in the data file (Week 18 through Week 37 inclusive). And there is only 19 rows. The samples represented by the columns are independant, and the numbers in the columns are the fraction of events sampled that result in an event of another kind in the week since the sample was taken. The samples are not the same size, and starting with week 20, the number of values progressively gets smaller since there have been fewer than 37 weeks since the samples were taken. I can show you the contents of the data file if you wish. It is unremarkable, csv, with strings used for column names enclosed in double quotes. You might well have to. One man's unremarkable can be remarkably different from others'... I don't have to manually separate the samples into their own files do I? I was hoping to write a function that estimates the density function that best fits each sample individually, and then iterate of the columns, applying that function to each in turn. What is the best way to handle this? Thanks Ted -- O__ Peter Dalgaard Øster Farimagsgade 5, Entr.B c/ /'_ --- Dept. of Biostatistics PO Box 2099, 1014 Cph. K (*) \(*) -- University of Copenhagen Denmark Ph: (+45) 35327918 ~~ - ([EMAIL PROTECTED]) FAX: (+45) 35327907 __ R-help@r-project.org 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] Novice question about getting data into R
Try read.csv(K:\\MerchantData\\RiskModel\\refund_distribution.csv,header = TRUE) --- On Fri, 9/19/08, Ted Byers [EMAIL PROTECTED] wrote: From: Ted Byers [EMAIL PROTECTED] Subject: [R] Novice question about getting data into R To: r-help@r-project.org Received: Friday, September 19, 2008, 1:01 PM I found it easy to use R when typing data manually into it. Now I need to read data from a file, and I get the following errors: refdata = read.table(K:\\MerchantData\\RiskModel\\refund_distribution.csv, header = TRUE) Error in scan(file, what, nmax, sep, dec, quote, skip, nlines, na.strings, : line 1 did not have 42 elements refdata = read.table(K:\\MerchantData\\RiskModel\\refund_distribution.csv) Error in scan(file, what, nmax, sep, dec, quote, skip, nlines, na.strings, : line 2 did not have 42 elements (I'd tried the first version above because the first record has column names.) First, I don't know why R expects 42 elements in a record. There is one column for a time variable (weeks since a given week of samples were taken) and one for each week of sampling in the data file (Week 18 through Week 37 inclusive). And there is only 19 rows. The samples represented by the columns are independant, and the numbers in the columns are the fraction of events sampled that result in an event of another kind in the week since the sample was taken. The samples are not the same size, and starting with week 20, the number of values progressively gets smaller since there have been fewer than 37 weeks since the samples were taken. I can show you the contents of the data file if you wish. It is unremarkable, csv, with strings used for column names enclosed in double quotes. I don't have to manually separate the samples into their own files do I? I was hoping to write a function that estimates the density function that best fits each sample individually, and then iterate of the columns, applying that function to each in turn. What is the best way to handle this? Thanks Ted -- View this message in context: http://www.nabble.com/Novice-question-about-getting-data-into-R-tp19576065p19576065.html Sent from the R help mailing list archive at Nabble.com. __ R-help@r-project.org 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@r-project.org 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] Lines between panels in lattice
Got it. It should be plot1.panel.1.2.off.vp and likewise. Thanks Saptarshi On Sep 19, 2008, at 12:08 PM, Saptarshi Guha wrote: Hello, I have a multi-page display each consisting of two-panels above each other. I need to draw a line from the top panel to bottom panel. Using current.vpTree() i find that plot1.panel.1.2.vp and plot1.panel.1.1.vp are the top and bottom ones respectively. I am using the following code(inspired by Paul Murrell's R Graphics) to draw a line. (All the co-ordinates lie well within the ranges of the respective panels) seekViewport(plot1.panel.1.2.vp) grid.move.to(unit(0.72,native),unit(3.8,native)) seekViewport(plot1.panel.1.1.vp) grid.line.to(unit(1.2,native),unit(3.5,native)) However, I can see the line in the bottom panel, but nothing in the top. Is there some clipping going on? Thanks Saptarshi Saptarshi Guha | [EMAIL PROTECTED] | http://www.stat.purdue.edu/~sguha Saptarshi Guha | [EMAIL PROTECTED] | http://www.stat.purdue.edu/~sguha After years of research, scientists recently reported that there is, indeed, arroz in Spanish Harlem. [[alternative HTML version deleted]] __ R-help@r-project.org 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] reproduce this graph in ggplot2 (code and data included)
How can I reproduce this graph in ggplot2 (regression lines and data point superimposed). Thanks, Juliet filename=http://personality-project.org/r/datasets/heating.txt; heating=read.table(filename,header=TRUE) symb=c(19,25,3,23) colors=c(black,red,green,blue) plot(degreedays,therms,pch=symb[Location],col=colors[Location],bg=colors[Location],cex=1.0) by(heating,Location,function(x) abline(lm(therms~degreedays,data=x))) __ R-help@r-project.org 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] reproduce this graph in ggplot2 (code and data included)
Here's one way: qplot(degreedays, therms, data=heating, colour = Location, shape = Location) + geom_smooth(method = lm, fullrange = T, se = F) Hadley On Fri, Sep 19, 2008 at 12:45 PM, Juliet Hannah [EMAIL PROTECTED] wrote: How can I reproduce this graph in ggplot2 (regression lines and data point superimposed). Thanks, Juliet filename=http://personality-project.org/r/datasets/heating.txt; heating=read.table(filename,header=TRUE) symb=c(19,25,3,23) colors=c(black,red,green,blue) plot(degreedays,therms,pch=symb[Location],col=colors[Location],bg=colors[Location],cex=1.0) by(heating,Location,function(x) abline(lm(therms~degreedays,data=x))) __ R-help@r-project.org 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. -- http://had.co.nz/ __ R-help@r-project.org 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] Coloring spaces between lines in xyplot
On Thu, Sep 18, 2008 at 5:14 PM, Seth W Bigelow [EMAIL PROTECTED] wrote: Greetings: I wish to create a stacked line graph in xyplot, adding color to the spaces between the lines. For example, the code below creates a plot with two lines extending across it, and I want to color the rhomboid that is between the upper and lower line, and between the lower line and the bottom of the frame. Suggestions appreciated Well, if you relax the condition to use lattice, try install.packages(ggplot2) library(ggplot2) x - rep(seq(1,10), 2) y - c(1+1.5*(1:10), 0.2 + 1.3*(1:10) ) trt - rep(c(low, high), each = 10) qplot(x, y, fill=trt, geom=area) Hadley -- http://had.co.nz/ __ R-help@r-project.org 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] R on a eeepc 901 ?
Sigbert, When I do: apt-get install ksmserver kicker I get a message stating that there is no header in the package (Xandros came in Spanish, so I have to translate the message, which is not easy) Aterwards, I have to Edit sources.list file and create a preferences file. As the repositories that are mentioned in http://wiki.r-project.org/rwiki/doku.php?id=getting-started:installation:eeepc are for the 701, I don't think this is safe, I could just get wrong updates and screw up everything. The page states If anyone has experiences with a EEE PC 901 then please add them here! which means that these directions are not for 901. I'm willing to try, but would need someone to guide me. Probably it's just a matter of setting the appropriate repositories and priorities for the 901 Agus Hi, it seems that the directions in http://wiki.r-project.org/rwiki/doku.php?id=getting-started:installation:eeepc refer to installing R on a eeepc 701 and actually Yes, it does :) fail for a 901 at the first step. What exactly failed? You are actually do not need the KDE desktop. Greetings Sigbert -- Dr. Agustin Lobo Institut de Ciencies de la Terra Jaume Almera (CSIC) LLuis Sole Sabaris s/n 08028 Barcelona Spain Tel. 34 934095410 Fax. 34 934110012 email: [EMAIL PROTECTED] http://www.ija.csic.es/gt/obster __ R-help@r-project.org 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] Novice question about getting data into R
refdata = read.table(K:\\MerchantData\\RiskModel\\refund_distribution.csv, header = TRUE) Error in scan(file, what, nmax, sep, dec, quote, skip, nlines, na.strings, : line 1 did not have 42 elements refdata = read.table(K:\\MerchantData\\RiskModel\\refund_distribution.csv) Error in scan(file, what, nmax, sep, dec, quote, skip, nlines, na.strings, : line 2 did not have 42 elements R interprets that you have 42 columns from the variable names. Do you? See if removing spaces between column names helps (e.g., week.1 instead of week 1). Also, because yours is a csv file, fields are separated by comas. You can either use the read.csv command instead of the read.table (see ?read.table for details), or add the argument sep=, to tell R that fields are separated by comas. You might also need to specify, if you have empty cells, what to do with them (e.g., na.strings=) -- View this message in context: http://www.nabble.com/Novice-question-about-getting-data-into-R-tp19576065p19576350.html Sent from the R help mailing list archive at Nabble.com. __ R-help@r-project.org 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 keep up with R?
I agree! The best way to learn (and remember for longer) is to teach someone else about it. And there is not reason not to repeat some of the anlysis done on SAS with R. That way you can verify your outputs or compare the presentations. If you consistently find differences in the outputs, then trying to figure out the reason may lead you to better understand the methods (e.g. different optimization or estimation procedures). Regards, Adai Barry Rowlingson wrote: 2008/9/19 Wensui Liu [EMAIL PROTECTED]: Dear Listers, I've been a big fan of R since graduate school. After working in the industry for years, I haven't had many opportunities to use R and am mainly using SAS. However, I am still forcing myself really hard to stay close to R by reading R-help and books and writing R code by myself for fun. But by and by, I start realizing I have hard time to keep up with R and am afraid that I would totally forget how to program in R. I really like it and am very unwilling to give it up. Is there any idea how I might keep touch with R without using it in work on daily basis? I really appreciate it. How about doing some kind of presentation on R at your work? It's possible that some of the old fossils don't even know about it at all, and use SAS because to them the alternative is SPSS. Do some R evangelization. Find a task that R does better than SAS (not difficult) and illustrate that to your superiors. Then when they ask how much a corporate R license is, you tell them it's free, or say it'll cost them a 2% raise in your salary, or say it will cost them your resignation if you are feeling brave! Sure you may be tied to SAS for some other reasons, but there's no reason why you can't use R for other things. Work out how to get it into your corporate framework. Encourage your colleagues to look at it for their tasks. Enthuse. The good thing about training and evangelization is that at first you don't need mad skillz at R to do it. I have trouble understanding some of the tips on R-help (especially when do.call() is used), but you can teach new people with a good knowledge of the basics, which you should still have. Eventually the hope is that enough people use R at your workplace to develop a community where everyone keeps everyone else on their toes with R questions! Good luck! Barry __ R-help@r-project.org 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@r-project.org 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 Accessibility
I'm not so sure the original way I stated my issue was clear enough, so I'll attempt to elaborate a little bit. I'd like to make a function that is passed the name of a plot object, and a lines/point specification, and graphs them all on the same plot. I don't want to redraw the plot each time, and I don't want the code to have any concept of a first entry instantiating the plot with plot() in place of lines(). Ideally, I'd like something to the effect of: plot - createPlot(main = Hello World, sub = tiny, little world, xlim = c(-3, 3), ylim = c(-3, 3)) plot - addElement(plot, lines(col = 'BLUE', x = c(0, 1, 2, 3), y = c(3, 2, 1, 0))) Hopefully this laid my problem out a little better. Thanks in advance for any help you might be able to offer -John Crepezzi -- View this message in context: http://www.nabble.com/Plot-Accessibility-tp19575437p19575437.html Sent from the R help mailing list archive at Nabble.com. __ R-help@r-project.org 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] Plot availability
I'm not so sure the original way I stated my issue was clear enough, so I'll attempt to elaborate a little bit. I'd like to make a function that is passed the name of a plot object, and a lines/point specification, and graphs them all on the same plot. I don't want to redraw the plot each time, and I don't want the code to have any concept of a first entry instantiating the plot with plot() in place of lines(). Ideally, I'd like something to the effect of: plot - createPlot(main = Hello World, sub = tiny, little world, xlim = c(-3, 3), ylim = c(-3, 3)) plot - addElement(plot, lines(col = 'BLUE', x = c(0, 1, 2, 3), y = c(3, 2, 1, 0))) Hopefully this laid my problem out a little better. Thanks in advance for any help you might be able to offer -John Crepezzi On Sep 19, 10:11 am, Duncan Murdoch [EMAIL PROTECTED] wrote: On 9/19/2008 9:32 AM, john crepezzi wrote: Is it possible to see if a plot is already open before I call lines()? I don't think so. You can see if a graphics device is open by looking at dev.cur(), but I don't think there's a test for plot.new(). I'd just wrap the call in try() if you're not sure it will work. Duncan Murdoch __ [EMAIL PROTECTED] mailing listhttps://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guidehttp://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. __ R-help@r-project.org 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] Coloring spaces between lines in xyplot
Ok, thanks to Carl Witthoft I now know that to color spaces between and below a pair of lines in xyplot, I will need to redefine the lines as polygons, and use the lpolygon panel function, as in the following library(lattice) p - c(1,10,10,1) # vector of x values q - c(4,29.2,16,2.5) # vector of y values for upper polygon r - c(2.5,16,0,0)# vector of y values for lower polygon xyplot( q + r ~ p, panel = lpolygon, col = c(red,green) ) But, having spent several hours arriving at this increment of knowlege, I find myself stumped at how to assign different colors to the two polygons! the above col line did not do the job. --Seth Dr. Seth W. Bigelow Biologist, Sierra Nevada Research Center Pacific Southwest Research Station, USDA Forest Service. 1731 Research Park Drive, Davis CA 95618 [EMAIL PROTECTED] www.fs.fed.us/psw/programs/snrc/staff/bigelow www.swbigelow.net Phone: 530 759 1718 Fax: 530 747 0241 __ R-help@r-project.org 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] Weighted polytomous logistic regression
Hi, I am trying to fit a polytomous logistic regression with inverted sampling probabity as weight. I've tried multinom(nnet) function. While the results look not right. For example, the results were not the same for the following two model. Should I normalize the weights first? Or there were some other functions to use? multinom(y~x,weights=rep(2,length(y)) vs. multinom(y~x) Thanks, Yinghui __ R-help@r-project.org 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] Position WINDOWS TKTOPLEVEL
Hello friends!!! I´m spanish student, I am finishing the finish project in computer science. I am creating a R package about CircularStatistics, In october i will upload it to CRAN. I need to resolve one problem. I need to put a windows created with tktoplevel into screen center. How I could put the windows created in the center of the screen? I have created the windows with next sentences tt - tktoplevel(width=2000,height=300) Thank you very much, A greetings, Luismi -- View this message in context: http://www.nabble.com/Position-WINDOWS-TKTOPLEVEL-tp19577290p19577290.html Sent from the R help mailing list archive at Nabble.com. __ R-help@r-project.org 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] Novice question about getting data into R
Silvia Lomascolo wrote: refdata = read.table(K:\\MerchantData\\RiskModel\\refund_distribution.csv, header = TRUE) Error in scan(file, what, nmax, sep, dec, quote, skip, nlines, na.strings, : line 1 did not have 42 elements refdata = read.table(K:\\MerchantData\\RiskModel\\refund_distribution.csv) Error in scan(file, what, nmax, sep, dec, quote, skip, nlines, na.strings, : line 2 did not have 42 elements R interprets that you have 42 columns from the variable names. Do you? See if removing spaces between column names helps (e.g., week.1 instead of week 1). Also, because yours is a csv file, fields are separated by comas. You can either use the read.csv command instead of the read.table (see ?read.table for details), or add the argument sep=, to tell R that fields are separated by comas. You might also need to specify, if you have empty cells, what to do with them (e.g., na.strings=) You are of course right about the NA's (missing values, empty cells) as well as the possible blanks in the column names. It might nevertheless be a good idea for him to at least submit a few of the lines at the top of the file. A .csv file as generated by Excel on Windows is not necessarily comma-separated. That depends on the list separator setting under Regional Language Settings found in the Control Panel. On my machine, the list separator is a semicolon for a .csv file. The reason is simple, in Norway, the standard decimal separator is a comma, and you do not want to confuse the system too much. So, that particular point is dependent on the settisngs for his locale (language, country). 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@r-project.org 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] Fwd: Lines between panels in lattice
Forgot to send to the list. Begin forwarded message: From: Saptarshi Guha [EMAIL PROTECTED] Date: September 19, 2008 1:43:50 PM GMT-04:00 To: Gabor Grothendieck [EMAIL PROTECTED] Subject: Re: [R] Lines between panels in lattice Certainly. x=cbind(runif(10),rnorm(10),c(rep(1,5),rep(2,5))) xyplot(x[,2]~x[,1]|x[,3],layout=c(1,2)) x #x[,3]==2 is in the top panel and x[,3]==1 is in the bottom panel #so x[6:,] onwards is on the top panel and x[1:5,] is in the bottom #to find out the names of the viewports, use current.vpTree() seekViewport(plot1.panel.1.2.off.vp) grid.move.to(unit(x[10,1],native),unit(x[10,2],native)) seekViewport(plot1.panel.1.1.off.vp) grid .line .to (unit (x[1,1],native),unit(x[1,2],native),gp=gpar(col='#aa',lty=3)) Further details can be found in R Graphics, Paul Murrel, page 196 (ISBN 1-58488-486-X) Hope it helps. Regards Saptarshi On Sep 19, 2008, at 1:32 PM, Gabor Grothendieck wrote: Maybe you could post a working solution. On Fri, Sep 19, 2008 at 1:28 PM, Saptarshi Guha [EMAIL PROTECTED] wrote: Got it. It should be plot1.panel.1.2.off.vp and likewise. Thanks Saptarshi On Sep 19, 2008, at 12:08 PM, Saptarshi Guha wrote: Hello, I have a multi-page display each consisting of two-panels above each other. I need to draw a line from the top panel to bottom panel. Using current.vpTree() i find that plot1.panel.1.2.vp and plot1.panel.1.1.vp are the top and bottom ones respectively. I am using the following code(inspired by Paul Murrell's R Graphics) to draw a line. (All the co-ordinates lie well within the ranges of the respective panels) seekViewport(plot1.panel.1.2.vp) grid.move.to(unit(0.72,native),unit(3.8,native)) seekViewport(plot1.panel.1.1.vp) grid.line.to(unit(1.2,native),unit(3.5,native)) However, I can see the line in the bottom panel, but nothing in the top. Is there some clipping going on? Thanks Saptarshi Saptarshi Guha | [EMAIL PROTECTED] | http://www.stat.purdue.edu/~sguha Saptarshi Guha | [EMAIL PROTECTED] | http://www.stat.purdue.edu/~sguha After years of research, scientists recently reported that there is, indeed, arroz in Spanish Harlem. [[alternative HTML version deleted]] __ R-help@r-project.org 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. Saptarshi Guha | [EMAIL PROTECTED] | http://www.stat.purdue.edu/~sguha The mome rath isn't born that could outgrabe me. -- Nicol Williamson Saptarshi Guha | [EMAIL PROTECTED] | http://www.stat.purdue.edu/~sguha A fail-safe circuit will destroy others. -- Klipstein [[alternative HTML version deleted]] __ R-help@r-project.org 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] Plot availability
On Fri, Sep 19, 2008 at 1:00 PM, john crepezzi [EMAIL PROTECTED] wrote: I'm not so sure the original way I stated my issue was clear enough, so I'll attempt to elaborate a little bit. I'd like to make a function that is passed the name of a plot object, and a lines/point specification, and graphs them all on the same plot. I don't want to redraw the plot each time, and I don't want the code to have any concept of a first entry instantiating the plot with plot() in place of lines(). Ideally, I'd like something to the effect of: plot - createPlot(main = Hello World, sub = tiny, little world, xlim = c(-3, 3), ylim = c(-3, 3)) plot - addElement(plot, lines(col = 'BLUE', x = c(0, 1, 2, 3), y = c(3, 2, 1, 0))) Hopefully this laid my problem out a little better. Have a look at the ggplot2 package, which is based around this concept: http://had.co.nz/ggplot2. Hadley -- http://had.co.nz/ __ R-help@r-project.org 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] Novice question about getting data into R
Thanks one and all. Actually, I used OpenOffice's spreadsheet to creat the csv file, but I have been using it long enough to know to specify how I wanted it, and sometimes, when that proves annoying, I'll use Perl to finess it the way I want it. It seems my principle error was to assume that it would ignore the character strings within the double quotes and determine fields based on the commas. Silvia's remarks about empty cells and blanks in the middle of column names were right on the mark. Tom, I appreciate the caveats you mention. I am aware of the complications of i18n, but they don't affect me much as my stuff is run exclusively in Canada (pretty much the same norms as the US). They don't affect me (in a sense because I have manipuated data around such issues using perl in order to satisfy the peculiarities of the software used on one project or another - I deal with it almost as a matter of course, as long as I already know the peculiarities of the software I am working with), and I have plenty of experience moving data between spreadsheets, RDBMS such as MS SQL, PostgreSQl, MySQL, and XML files, and have had to resort to unusual delimiters in the past because of peculiarities in the data feed. While I have tonnes of experience developing software (C++, Java, FORTRAN, perl) I only started playing with R a few months ago, and this is the first I have had to import real data into it. While the tutorials I found were useful, it seems there are key tidbits of information I need scattered through the documentation and I am finding it challenging to find the peculiarities of R. Thanks again one and all. Ted Tom Backer Johnsen wrote: Silvia Lomascolo wrote: refdata = read.table(K:\\MerchantData\\RiskModel\\refund_distribution.csv, header = TRUE) Error in scan(file, what, nmax, sep, dec, quote, skip, nlines, na.strings, : line 1 did not have 42 elements refdata = read.table(K:\\MerchantData\\RiskModel\\refund_distribution.csv) Error in scan(file, what, nmax, sep, dec, quote, skip, nlines, na.strings, : line 2 did not have 42 elements R interprets that you have 42 columns from the variable names. Do you? See if removing spaces between column names helps (e.g., week.1 instead of week 1). Also, because yours is a csv file, fields are separated by comas. You can either use the read.csv command instead of the read.table (see ?read.table for details), or add the argument sep=, to tell R that fields are separated by comas. You might also need to specify, if you have empty cells, what to do with them (e.g., na.strings=) You are of course right about the NA's (missing values, empty cells) as well as the possible blanks in the column names. It might nevertheless be a good idea for him to at least submit a few of the lines at the top of the file. A .csv file as generated by Excel on Windows is not necessarily comma-separated. That depends on the list separator setting under Regional Language Settings found in the Control Panel. On my machine, the list separator is a semicolon for a .csv file. The reason is simple, in Norway, the standard decimal separator is a comma, and you do not want to confuse the system too much. So, that particular point is dependent on the settisngs for his locale (language, country). 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@r-project.org 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. -- View this message in context: http://www.nabble.com/Novice-question-about-getting-data-into-R-tp19576065p19577763.html Sent from the R help mailing list archive at Nabble.com. __ R-help@r-project.org 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] Plot availability
On Fri, Sep 19, 2008 at 2:00 PM, john crepezzi [EMAIL PROTECTED] wrote: I'm not so sure the original way I stated my issue was clear enough, so I'll attempt to elaborate a little bit. I'd like to make a function that is passed the name of a plot object, and a lines/point specification, and graphs them all on the same plot. I don't want to redraw the plot each time, and I don't want the code to have any concept of a first entry instantiating the plot with plot() in place of lines(). Ideally, I'd like something to the effect of: plot - createPlot(main = Hello World, sub = tiny, little world, xlim = c(-3, 3), ylim = c(-3, 3)) plot - addElement(plot, lines(col = 'BLUE', x = c(0, 1, 2, 3), y = c(3, 2, 1, 0))) Hopefully this laid my problem out a little better. Thanks in advance for any help you might be able to offer -John Crepezzi On Sep 19, 10:11 am, Duncan Murdoch [EMAIL PROTECTED] wrote: On 9/19/2008 9:32 AM, john crepezzi wrote: Is it possible to see if a plot is already open before I call lines()? I don't think so. You can see if a graphics device is open by looking at dev.cur(), but I don't think there's a test for plot.new(). I'd just wrap the call in try() if you're not sure it will work. Using classic graphics try this: # classic graphics plot(BOD) p - recordPlot() # some times go by and other plots are made plot(0) # now go back to the original plot and add more replayPlot(p) points(5, 15, col = red) In lattice graphics its like this: # lattice graphics library(lattice) p - xyplot(demand ~ Time, BOD) # some times go by and other plots are made plot(0) # now replot the original plot and add more plot(p) trellis.focus(panel, 1, 1) panel.points(5, 15, col = red) trellis.unfocus() ggplot2 is also grid-based and should be amenable to this sort of thing too. __ R-help@r-project.org 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] plot order in multi-panel figure
You can reset the figure number with the 'mfg' parameter to 'par', but to do what you want you may be able to do using other tools. Look at the examples for the cnvrt.coords function in the TeachingDemos package (you can do similar things with the grconvertX and grconvertY functions) or look at the subplot function in the TeachingDemos package for another possible approach. Hope this helps, -- Gregory (Greg) L. Snow Ph.D. Statistical Data Center Intermountain Healthcare [EMAIL PROTECTED] 801.408.8111 -Original Message- From: [EMAIL PROTECTED] [mailto:[EMAIL PROTECTED] project.org] On Behalf Of Stephen Tucker Sent: Friday, September 19, 2008 8:37 AM To: R-help Subject: [R] plot order in multi-panel figure Hi, Does anyone know if there is a way to 'reset the plot number' on a traditional graphics device? For instance, I want to have two plots on stacked top of each other (mfrow=c(2,1)) but with underlying grid lines spanning both figures vertically. I can put the grid lines on top if I add them last: par(mfrow=c(2,1)) plot.new() plot.window(c(0,1),c(0,1)) for( i in 1:2) axis(i) box(bty=L) rect(0.2,0.2,0.5,0.5,col=8) plot.new() plot.window(c(0,1),c(0,1)) for( i in 1:2) axis(i) box(bty=L) par(mfrow=c(1,1)) plot.window(c(0,1),c(0,1)) abline(v=seq(0,1,by=0.2),lty=3) But ideally I would like to draw the grid lines before drawing other objects on top of it, but something like par(mfrow=c(1,1)) plot.new() plot.window(c(0,1),c(0,1)) abline(v=seq(0,1,by=0.2),lty=3) par(mfrow=c(2,1)) plot.window(c(0,1),c(0,1)) for( i in 1:2) axis(i) box(bty=L) rect(0.2,0.2,0.5,0.5,col=8) plot.new() plot.window(c(0,1),c(0,1)) for( i in 1:2) axis(i) box(bty=L) does not work because the first of the two plots appears in the bottom of the figure and not the top (as it is interpreted as the second of the mfrow=c(2,1) plots). I've also played around with layout() but I also get the same behavior. I suspect I can do this eventually with grid graphics but was wondering if it is also possible in traditional graphics. I would appreciate any help - thanks very much! Stephen __ R-help@r-project.org 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@r-project.org 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] caret package: arguments passed to the classification or regression routine
Forgot to cc...
On Fri, Sep 19, 2008 at 3:22 PM, Max Kuhn [EMAIL PROTECTED] wrote:
A new version 3.41 is on
https://r-forge.r-project.org/projects/caret/
Until later tonight, you will have to get it via
svn checkout svn://svn.r-forge.r-project.org/svnroot/caret
and build it yourself.
Usage examples:
library(caret)
library(mlbench)
data(BostonHousing)
gbm1 - train(medv ~ .,
data = BostonHousing,
gbm,
distribution = laplace,
verbose = FALSE)
gbm2 - train(medv ~ .,
data = BostonHousing,
gbm,
verbose = FALSE)
gbm3 - train(medv ~ .,
data = BostonHousing,
gbm,
verbose = FALSE,
distribution = list(name=quantile,alpha=0.5))
Max
On Fri, Sep 19, 2008 at 2:49 PM, Max Kuhn [EMAIL PROTECTED] wrote:
Peter,
train looks at the class of the outcome variable to determine the type
of model (regression or classification). Rather than making everyone
specify the distribution in every case, it switches between
bernoulli and gaussian.
For other models, train looks at the parameters passed via ... and
will let those over-ride the automatically generated values. I can do
the same for gbm in this context (besides the tuning parameters, this
is the only argument that is automatically set for gbm).
I'll make the changes and upload a new version to
https://r-forge.r-project.org/projects/caret/
It will probably be version 3.41.
One other thing - it is usually better to email the package
maintainers off-list for questions like this before emailing the list.
Max
On Thu, Sep 18, 2008 at 2:22 PM, Peter Tait [EMAIL PROTECTED] wrote:
Hi,
I am having problems passing arguments to method=gbm using the train()
function.
I would like to train gbm using the laplace distribution or the quantile
distribution.
here is the code I used and the error:
gbm.test - train(x.enet, y.matrix[,7],
method=gbm,
distribution=list(name=quantile,alpha=0.5), verbose=FALSE,
trControl=trainControl(method=cv,number=5),
tuneGrid=gbmGrid
)
Model 1: interaction.depth=1, shrinkage=0.1, n.trees=300
collapsing over other values of n.trees
Error in gbm.fit(trainX, modY, interaction.depth =
tuneValue$.interaction.depth, :
formal argument distribution matched by multiple actual arguments
The same error occured with distribution=laplace.
I also tried the following without and success :
gbm.test - train(x.enet, y.matrix[,7],
method=gbm,
list(distribution=laplace, verbose=FALSE),
trControl=trainControl(method=cv,number=2),
tuneGrid=gbmGrid
)
Model 1: interaction.depth=1, shrinkage=0.1, n.trees=300
collapsing over other values of n.trees
Error in if (is.null(offset) || (offset == 0)) { :
missing value where TRUE/FALSE needed
In addition: Warning message:
In gbm.fit(trainX, modY, interaction.depth = tuneValue$.interaction.depth,
:
NAs introduced by coercion
Any help would be appreciated.
Cheers
Peter
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--
Max
--
Max
--
Max
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Re: [R] migrating data from s-plus to R
Patrizio Frederic [EMAIL PROTECTED] wrote: Dear all, is there any way to transform a .Data directory created in S-plus 6.1 for windows in a .RData file? You might try the functions dump or dput, which create text representations readable by either S or R. At least, they do so for many common data objects -- I can't say whether they will do so for specialized ones or not. -- 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@r-project.org 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] Plot availability
I believe I've found a way to wrap and use dev.cur()[[1]] to have the desired effect. I'm just leaving my terminal now, but I'll post these results on monday so everyone can see how it turned out. If you have any ideas or qualms with this method, please let me know. Thanks Duncan! --john On Sep 19, 2:00 pm, john crepezzi [EMAIL PROTECTED] wrote: I'm not so sure the original way I stated my issue was clear enough, so I'll attempt to elaborate a little bit. I'd like to make a function that is passed the name of a plot object, and a lines/point specification, and graphs them all on the same plot. I don't want to redraw the plot each time, and I don't want the code to have any concept of a first entry instantiating the plot with plot() in place of lines(). Ideally, I'd like something to the effect of: plot - createPlot(main = Hello World, sub = tiny, little world, xlim = c(-3, 3), ylim = c(-3, 3)) plot - addElement(plot, lines(col = 'BLUE', x = c(0, 1, 2, 3), y = c(3, 2, 1, 0))) Hopefully this laid my problem out a little better. Thanks in advance for any help you might be able to offer -John Crepezzi On Sep 19, 10:11 am, Duncan Murdoch [EMAIL PROTECTED] wrote: On 9/19/2008 9:32 AM, john crepezzi wrote: Is it possible to see if a plot is already open before I call lines()? I don't think so. You can see if a graphics device is open by looking at dev.cur(), but I don't think there's a test for plot.new(). I'd just wrap the call in try() if you're not sure it will work. Duncan Murdoch __ [EMAIL PROTECTED] mailing listhttps://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guidehttp://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. __ [EMAIL PROTECTED] mailing listhttps://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guidehttp://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. __ R-help@r-project.org 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] lme: NaNs in hierarchical model
Dear R-users, I'm somehow new to the topic of mixed models. I'd liked to simulate data with a specific correlation-structure and analyze it with lme(). I have a fixed effect (group) and a random effect (block): ygroup block -5.2158969-2 1 -2.4174197-2 1 -2.6731572-2 1 -3.6310082-2 1 -0.3888706 0 2 1.3422255 0 2 0.8303369 0 2 1.0985184 0 2 2.4403000 2 3 2.0890006 2 3 2.8849674 2 3 3.1946739 2 3 This is just a short data.frame, to illustrate my model. My mentor called it 'hierarchical' model, because every group is in one block and only the observations of one group are correlated. When I now try to analyze this using lme with the following model fit-lme(y~group,random=~1|block) there is an error message: In pf(q, df1, df2, lower.tail, log.p) : NaNs produced In fact I generate a certain number of that data and analyze it with anova(lme()) to get the p-values and then count them to get the power of the test. What I don't understand is, why are there NaNs? Or better: why is the group-DF zero? The output is the following: fit Linear mixed-effects model fit by REML Data: NULL Log-restricted-likelihood: -13.90713 Fixed: y ~ group (Intercept) group0 group2 -3.4843704.2049236.136606 Random effects: Formula: ~1 | block (Intercept) Residual StdDev:1.200732 0.9005491 Number of Observations: 12 Number of Groups: 3 anova(fit) numDF denDF F-value p-value (Intercept) 1 9 0.002524 0.961 group 2 0 5.986678 NaN Warning message: In pf(q, df1, df2, lower.tail, log.p) : NaNs produced When I do the same with a sort of 'crossed' design y group block -1.8892392-2 1 0.4329959 0 1 3.2474885 2 1 -3.7710187-2 2 -1.6624300 0 2 1.2584779 2 2 -1.6813929-2 3 1.6828940 0 3 2.2041250 2 3 -1.2136863-2 4 0.7032238 0 4 0.9012617 2 4 the call to lme() works just fine: lme(y~group,random=~1|block) then anova() gives me the p-value and I'm happy=) For my issue being to simulate the power I need to have the p-value. I tried it with lmer(): anova(lmer(y~group+(1|block))) which works, but with no degree of freedom I don't see myself getting a critical F value that leads to my desired power. Or am I just wrong and there's an easy way to compute it? Or is my model formula for the hierarchical model wrong? So that really confuses me and with all those things I read today concerning this problem I'm not less confused. The problem is: I need to get it solved very quickly. So, please, if there's someone who can help me... I'd be so grateful. mel -- View this message in context: http://www.nabble.com/lme%3A-NaNs-in-hierarchical-model-tp19578256p19578256.html Sent from the R help mailing list archive at Nabble.com. __ R-help@r-project.org 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] gbm package on 64 bit machine
I'm having trouble getting the gbm package to load on my new 64 bit machine running xp professional OS. I installed version 2.72 and loaded the package, although I got an error message: The downloaded packages are in C:\Documents and Settings\Administrator\Local Settings\Temp\RtmpQbYngm\downloaded_packages updating HTML package descriptions fin-read.csv(c:/documents and settings/administrator/my documents/R/fin_sb_mat.csv) Error: unexpected '/' in fin-read.csv(c:/ fin-read.csv(c:/documents and settings/administrator/my documents/R/fin_sb_mat.csv) fin.tc5.lr01 - gbm.step(data=fin, + + gbm.x = 7:14, + + gbm.y = 24, + + family = bernoulli, + + tree.complexity = 5, + + learning.rate = 0.01, + + bag.fraction = 0.5) Error: could not find function gbm.step Any ideas on what could be wrong? John -- View this message in context: http://www.nabble.com/gbm-package-on-64-bit-machine-tp19577991p19577991.html Sent from the R help mailing list archive at Nabble.com. __ R-help@r-project.org 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] ggplot2 and lattice
I am in the process of learning lattice graphics and have looked at ggplot2 a little. I would like to know if there is a tutorial that shows how to convert lattice code into ggplot code and vise versa. I am finally discovering the power of these two packages and would like suggestions to lessen my learning curve. I could not find a straight foward answer on the internet (I may have not looked far enough) to what a parralelle plot is used for. thanks -- Stephen Sefick Research Scientist Southeastern Natural Sciences Academy Let's not spend our time and resources thinking about things that are so little or so large that all they really do for us is puff us up and make us feel like gods. We are mammals, and have not exhausted the annoying little problems of being mammals. -K. Mullis __ R-help@r-project.org 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] two questions on Sweave (help in the output + warnings in the output)
Dear All,
I am working on some slides using LaTeX/Beamer and R/Sweave.
I have the two questions below (sorry if they are stupid or already
solved but I didn't find solutions on the web).
1) Using the following code:
\begin{frame}[containsverbatim]
echo=TRUE=
help('dim')
@
\end{frame}
I have only:
help(dim)
on the slide. Is it possible to directly include in the slide the help
of the function?
2) Using the following code:
\begin{frame}[containsverbatim]
echo=TRUE=
1:5 + 1:3
@
I have in the slide:
1:5 + 1:3
[1] 2 4 6 5 7
How can I print also the related Warning message on the slide?
Thanks in advance for the help,
domenico
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Re: [R] ggplot2 and lattice
On Fri, Sep 19, 2008 at 3:27 PM, stephen sefick [EMAIL PROTECTED] wrote: I am in the process of learning lattice graphics and have looked at ggplot2 a little. I would like to know if there is a tutorial that shows how to convert lattice code into ggplot code and vise versa. I am finally discovering the power of these two packages and would like suggestions to lessen my learning curve. No, but it is on my to do list. I have this page, http://had.co.nz/ggplot/vs-lattice.html, from a previous version of ggplot, but most of the code no longer works. It would be helpful if you would look at the lattice examples and let me know what is missing. It wouldn't be much work to update it for ggplot2. I could not find a straight foward answer on the internet (I may have not looked far enough) to what a parralelle plot is used for. A parallel coordinates plot? Hadley -- http://had.co.nz/ __ R-help@r-project.org 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] [R-gui] Tinn-R/Latex output
Mike Prager wrote:
David Carslaw [EMAIL PROTECTED] wrote:
I find Tinn-R to be an excellent editor for R, but I have one question I
have not been able to answer.
I wish to include some R code in Latex. Using the Edit/Copy formatted
(to export)/TeX does provide Latex-type output. However, there are lots
of commands such as \RAIdentifier and \RAOperator etc. that would appear
to need either a Latex package to interpret or a list of new commands
that describe font attributes etc.
My question is whether such a package exists, or is the user expected to
define their own commands to interpret them?
David,
I also find Tinn-R an excellent editor for R.
When I include R code in Latex, I use the Latex listings
package. It has a wide variety of settings for pretty-printing R
code and can be customized by the user. I think that would be
more satisfactory in the long run than inserting Latex codes (or
having an editor insert Latex codes) to mark R language
elements.
HTH
Mike P.
The following is how I set up the listings package usage for R. If you
have improvements to this please pass them along. -Frank
\usepackage{listings,relsize}
%Setup for listings package
\lstloadlanguages{R}
\lstset{language=R,basicstyle=\smaller[2],commentstyle=\rmfamily\smaller,
showstringspaces=false,%
xleftmargin=4ex,literate={-}{{$\leftarrow$}}1 {~}{{$\sim$}}1}
\lstset{escapeinside={(*}{*)}} % for (*\ref{ }*) inside lstlistings (S
code)
--
Frank E Harrell Jr Professor and Chair School of Medicine
Department of Biostatistics Vanderbilt University
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Re: [R] ggplot2 and lattice
yes a parallel coordinates plot- I understand that it is for multivariate data, but I am having a hard time figuring out what it is telling me. Thanks for your help. On Fri, Sep 19, 2008 at 5:02 PM, hadley wickham [EMAIL PROTECTED] wrote: On Fri, Sep 19, 2008 at 3:27 PM, stephen sefick [EMAIL PROTECTED] wrote: I am in the process of learning lattice graphics and have looked at ggplot2 a little. I would like to know if there is a tutorial that shows how to convert lattice code into ggplot code and vise versa. I am finally discovering the power of these two packages and would like suggestions to lessen my learning curve. No, but it is on my to do list. I have this page, http://had.co.nz/ggplot/vs-lattice.html, from a previous version of ggplot, but most of the code no longer works. It would be helpful if you would look at the lattice examples and let me know what is missing. It wouldn't be much work to update it for ggplot2. I could not find a straight foward answer on the internet (I may have not looked far enough) to what a parralelle plot is used for. A parallel coordinates plot? Hadley -- http://had.co.nz/ -- Stephen Sefick Research Scientist Southeastern Natural Sciences Academy Let's not spend our time and resources thinking about things that are so little or so large that all they really do for us is puff us up and make us feel like gods. We are mammals, and have not exhausted the annoying little problems of being mammals. -K. Mullis __ R-help@r-project.org 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] [R-gui] Tinn-R/Latex output
On Fri, Sep 19, 2008 at 4:05 PM, Frank E Harrell Jr
[EMAIL PROTECTED] wrote:
Mike Prager wrote:
David Carslaw [EMAIL PROTECTED] wrote:
I find Tinn-R to be an excellent editor for R, but I have one question I
have not been able to answer.
I wish to include some R code in Latex. Using the Edit/Copy formatted
(to export)/TeX does provide Latex-type output. However, there are lots
of commands such as \RAIdentifier and \RAOperator etc. that would appear
to need either a Latex package to interpret or a list of new commands
that describe font attributes etc.
My question is whether such a package exists, or is the user expected to
define their own commands to interpret them?
David,
I also find Tinn-R an excellent editor for R.
When I include R code in Latex, I use the Latex listings
package. It has a wide variety of settings for pretty-printing R
code and can be customized by the user. I think that would be
more satisfactory in the long run than inserting Latex codes (or
having an editor insert Latex codes) to mark R language
elements.
HTH
Mike P.
The following is how I set up the listings package usage for R. If you have
improvements to this please pass them along. -Frank
\usepackage{listings,relsize}
%Setup for listings package
\lstloadlanguages{R}
\lstset{language=R,basicstyle=\smaller[2],commentstyle=\rmfamily\smaller,
showstringspaces=false,%
xleftmargin=4ex,literate={-}{{$\leftarrow$}}1 {~}{{$\sim$}}1}
\lstset{escapeinside={(*}{*)}} % for (*\ref{ }*) inside lstlistings (S
code)
I have played around with:
\definecolor{comment}{rgb}{0.60, 0.60, 0.53}
\definecolor{background}{rgb}{0.97, 0.97, 1.00}
\definecolor{string}{rgb}{0.863, 0.066, 0.266}
\definecolor{number}{rgb}{0.0, 0.6, 0.6}
\definecolor{variable}{rgb}{0.00, 0.52, 0.70}
\lstset{
basicstyle=\ttfamily,
keywordstyle=\bfseries,
identifierstyle=,
commentstyle=\color{comment} \itshape,
stringstyle=, %\color{string}
showstringspaces=false,
columns = fullflexible,
backgroundcolor=\color{background},
mathescape = true,
escapeinside=,
fancyvrb
}
Hadley
--
http://had.co.nz/
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Re: [R] [R-gui] Tinn-R/Latex output
hadley wickham wrote:
On Fri, Sep 19, 2008 at 4:05 PM, Frank E Harrell Jr
[EMAIL PROTECTED] wrote:
Mike Prager wrote:
David Carslaw [EMAIL PROTECTED] wrote:
I find Tinn-R to be an excellent editor for R, but I have one question I
have not been able to answer.
I wish to include some R code in Latex. Using the Edit/Copy formatted
(to export)/TeX does provide Latex-type output. However, there are lots
of commands such as \RAIdentifier and \RAOperator etc. that would appear
to need either a Latex package to interpret or a list of new commands
that describe font attributes etc.
My question is whether such a package exists, or is the user expected to
define their own commands to interpret them?
David,
I also find Tinn-R an excellent editor for R.
When I include R code in Latex, I use the Latex listings
package. It has a wide variety of settings for pretty-printing R
code and can be customized by the user. I think that would be
more satisfactory in the long run than inserting Latex codes (or
having an editor insert Latex codes) to mark R language
elements.
HTH
Mike P.
The following is how I set up the listings package usage for R. If you have
improvements to this please pass them along. -Frank
\usepackage{listings,relsize}
%Setup for listings package
\lstloadlanguages{R}
\lstset{language=R,basicstyle=\smaller[2],commentstyle=\rmfamily\smaller,
showstringspaces=false,%
xleftmargin=4ex,literate={-}{{$\leftarrow$}}1 {~}{{$\sim$}}1}
\lstset{escapeinside={(*}{*)}} % for (*\ref{ }*) inside lstlistings (S
code)
I have played around with:
\definecolor{comment}{rgb}{0.60, 0.60, 0.53}
\definecolor{background}{rgb}{0.97, 0.97, 1.00}
\definecolor{string}{rgb}{0.863, 0.066, 0.266}
\definecolor{number}{rgb}{0.0, 0.6, 0.6}
\definecolor{variable}{rgb}{0.00, 0.52, 0.70}
\lstset{
basicstyle=\ttfamily,
keywordstyle=\bfseries,
identifierstyle=,
commentstyle=\color{comment} \itshape,
stringstyle=, %\color{string}
showstringspaces=false,
columns = fullflexible,
backgroundcolor=\color{background},
mathescape = true,
escapeinside=,
fancyvrb
}
Hadley
Thanks Hadley. Your specificatins generated a couple of syntax errors
for me and typeset the code too large but I'd like to play with it and
I'm glad to have it.
Frank
--
Frank E Harrell Jr Professor and Chair School of Medicine
Department of Biostatistics Vanderbilt University
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Re: [R] Manual to learn TCL - TK
On 19/09/2008 6:25 PM, ermimi wrote: Hello! Anybody knows any manual to learn TCL - TK? I need it to finish my finsish projet. There are a lot of books available, and the docs are included with the Windows distribution of R, in R_HOME/Tcl/doc/tcltk85.chm. Not sure about other platforms. Duncan Murdoch __ R-help@r-project.org 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 keep up with R?
One thing that R does very well that SAS does not is graphics - graphical portrayal of data is important, and you can keep up with R by supplementing your SAS analyses with R graphics. Steve McKinney -Original Message- From: [EMAIL PROTECTED] on behalf of Barry Rowlingson Sent: Fri 9/19/2008 12:36 AM To: Wensui Liu Cc: r-help Subject: Re: [R] how to keep up with R? 2008/9/19 Wensui Liu [EMAIL PROTECTED]: Dear Listers, I've been a big fan of R since graduate school. After working in the industry for years, I haven't had many opportunities to use R and am mainly using SAS. However, I am still forcing myself really hard to stay close to R by reading R-help and books and writing R code by myself for fun. But by and by, I start realizing I have hard time to keep up with R and am afraid that I would totally forget how to program in R. I really like it and am very unwilling to give it up. Is there any idea how I might keep touch with R without using it in work on daily basis? I really appreciate it. How about doing some kind of presentation on R at your work? It's possible that some of the old fossils don't even know about it at all, and use SAS because to them the alternative is SPSS. Do some R evangelization. Find a task that R does better than SAS (not difficult) and illustrate that to your superiors. Then when they ask how much a corporate R license is, you tell them it's free, or say it'll cost them a 2% raise in your salary, or say it will cost them your resignation if you are feeling brave! Sure you may be tied to SAS for some other reasons, but there's no reason why you can't use R for other things. Work out how to get it into your corporate framework. Encourage your colleagues to look at it for their tasks. Enthuse. The good thing about training and evangelization is that at first you don't need mad skillz at R to do it. I have trouble understanding some of the tips on R-help (especially when do.call() is used), but you can teach new people with a good knowledge of the basics, which you should still have. Eventually the hope is that enough people use R at your workplace to develop a community where everyone keeps everyone else on their toes with R questions! Good luck! Barry __ R-help@r-project.org 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@r-project.org 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] selecting dataframe values that are not nulls
Ramya, you sent four near identical emails with different subject lines. Since the list is run by unpaid volunteers, please avoid wasting people's time (and yours too) with such redundancies. Please read http://www.r-project.org/posting-guide.html and search the mailing lists and documentations. Did you receive the replies to your 1st request from miltinho and Moshe? If not, have a look at help(merge) with the all.x, all.y and all argument. You might also be interested in unique, is.na, list. Regards, Adai Rajasekaramya wrote: Hi, I have a dataframe with 14319rows and 9 colums. for some rows there are null values.I want a dataframe without these null values.I wanna select only those that have values !=NA. kindly let me know how to do that. Ramya __ R-help@r-project.org 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] AUC / ROC for presence only.
Dear all, I have a probability of presence of distribution of a species of interest (varying from 0 to 1 in continuous form) and I have a set of points where I know that species really occurs. But I don´t have points of absence. So, for each true presence I know the estimated presence. I would like to know how can I compute AUC, taking account these Available data. Best wishes, Miltinho autronauta brazil [[alternative HTML version deleted]] __ R-help@r-project.org 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] Design lrm function
milicic.marko wrote: Hi, Is it possible to get ROC and accuracy ratio/gini straight out of the Design package? Thanks The print method for lrm prints the ROC area (labeled C). lrm does not print the other 2 measures you listed. It computes a generalized R^2 (much more powerful than all the other measures) and rank indexes other than C. -- Frank E Harrell Jr Professor and Chair School of Medicine Department of Biostatistics Vanderbilt University __ R-help@r-project.org 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.
