Re: [R] Predictions with missing inputs
On Fri, 2011-02-11 at 20:51 -0500, Axel Urbiz wrote: Dear users, I'll appreciate your help with this (hopefully) simple problem. I have a model object which was fitted to inputs X1, X2, X3. Now, I'd like to use this object to make predictions on a new data set where only X1 and X2 are available (just use the estimated coefficients for these variables in making predictions and ignoring the coefficient on X3). Here's my attempt but, of course, didn't work. #fit some linear model to random data x=matrix(rnorm(100*3),100,3) y=sample(1:2,100,replace=TRUE) mydata - data.frame(y,x) mymodel - lm(y ~ ns(X1, df=3) + X2 + X3, data=mydata) summary(mymodel) #create new data with 1 missing input mynewdata - data.frame(matrix(rnorm(100*2),100,2)) mypred - predict(mymodel, mynewdata) Thanks in advance for your help! Axel. Axel, I think mice package solve your problem -- Bernardo Rangel Tura, M.D,MPH,Ph.D National Institute of Cardiology Brazil __ 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] Fwd: About classification methods.
Yes, this point i can understand your suggestion and I should read HOW TO ASK GOOD QUESTIONS. I'm a just new mailing list, also a R user for researching on graduate school. Any person can make mistake, also it can be effect to other people, however a good person is teaching good way. Anyway, actually I couldn't understand why you telling me like this, but sorry for my English and stupid first mailing list user. Sorry again. ps. I don't know also why should I put your name on CC Bert, sorry. Last of all, R is a kind of professional software. It means many of R user is high level educated person at least I think. Also, so many foreigner using this software who is not good for English writing. Please little bit more understand foreign users. Thanks. On Feb 11, 2011, at 4:57 PM, David Winsemius wrote: On Feb 11, 2011, at 4:11 PM, Jaeik Cho wrote: I mean, after done for the testing step, I want show which data classified to wrong class. That predictions. At this point my suggestion is that your (re?)-read the Posting Guide and determine whether you have adhered to the level of detail and specificity that is implied to be desirable or optimal for questions to r-help. There may be a language issue and without implying any moral issue, the provision of a worked example might be even more important here than it would be in a situation of a shared language. You might also consult the How to ask good questions link which IIRC is at the bottom of that document. (My apologies to Bert if this was a question that he really was hoping to answer.) -- David Jaeik Begin forwarded message: From: Bert Gunter gunter.ber...@gene.com Date: February 11, 2011 3:00:47 PM CST To: David Winsemius dwinsem...@comcast.net Cc: Jaeik Cho choja...@gmail.com, r-help@r-project.org Subject: Re: [R] About classification methods. Which package should I using, and can I compare each classifier result by predictions? By prediction on the training data, emphastically no. By prediction on new data not used for training, yes. -- Bert __ 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. David Winsemius, MD West Hartford, CT __ 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] how to improve the precison of this calculation?
Hello
T
I want to order some calculation result, there will be lots of
result that need to calculate and order
PS: the result is just a intermediate varible and ordering them is
the very aim
# problem:
# For fixed NT and CT, and some pair (c,n). order the pair by corresponding
result
# c and n are both random variable
CT-6000#assignment to CT
NT-29535210#assignment to NT
# formulae for calculation intermediate variable result, this is just a
picture of the calculation which can't implement due to the precision problem
i-0:(c-1)
vec-choose(n,i)*choose(NT-n,CT-i) #get the vector which need summation
result-log(sum(vec)) #get the log of summation
# thanks to Petr, we have a solution
calsta - function(c, n) {
i - seq(from=0, length=c)
logx - lchoose(NT-n, CT-i) + lchoose(n, i)
logmax - max(logx)
logmax + log(sum(exp(logx - logmax)))
}
# now, new problem arise, in theory, the result of different (c,n) pair
should most probably differ, so I can order them, but
calsta(918,10)-calsta(718,10)
[1] 0
calsta(718,9)-calsta(718,9)
[1] 0
calsta(718,9)-calsta(918,10)
[1] 0
# As Eik pointed out in another post, calsta constantly returns 57003.6 for
c38 (the summands in
# sum(exp(logx - logmax)) will become 0 for c38) (when n= 10,000)
I think there are two ways to solve this problem:
1.Reducing the calcuation formulae algebraically get a conciser kernel for
comparing. I think this is the perfect method and I failed many times, though
this is not the topic of mailing-list, I hope if someone with stronge
algebraical skills could give me some surprise
2.Through skills of R, which is difficult for me
PS: I don't want a perfect solution but a better one, which could have a higher
discriminability than before
Thank you in advance
Yours sincerely
ZhaoXing
Department of Health Statistics
West China School of Public Health
Sichuan University
No.17 Section 3, South Renmin Road
Chengdu, Sichuan 610041
P.R.China
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[R] natural cubic spline and multiple variables
I want to create natural cubic spline on my predictors and fit them to a linear model. The DF and Degree of all the splines are the same. I noticed that I can setup the lm() formula as y~ns(x1, df=5) + ns(x2, df=5). My problem is that I have a huge number of predictors (hundreds). ns however seems to take only a single set of values for creating the splines. Is there an elegant way to handle this? ThanksVijay [[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] linear models with factors
i am trying to fit a linear model with both continuous covariates and factors. When fitted with the intercept term the first level of the factor is treated by R as intercept and the estimate of the effects of remaining levels(say i th level) are given as true estimate of i th level - estimate of 1st level. i want the estimates of coefficients of each level along with the intercept term(general effect).can anyone please help me? thanks in advance. -- View this message in context: http://r.789695.n4.nabble.com/linear-models-with-factors-tp3302404p3302404.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] Package distr and define your own distribution
Dear Gabriel, it is possible. You can define a new class or just an object of an already existing class. Did you look at: library(distr) vignette(newDistributions) as well as ?AbscontDistribution ?DiscreteDistribution Please let me know if you have further questions! Best Matthias On 11.02.2011 16:05, gabriel.ca...@ubs.com wrote: Hi all I am using the Package distr (and related) Do you know if it is possible to define your own distribution (object) GIVEN that you have an analytical form of the probability density function (pdf) ? I would then like to use the standard feature of the distr and related packages. Best regards Giuseppe Gabriel Cardi __ 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. -- Dr. Matthias Kohl www.stamats.de __ 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] Comparison of glm.nb and negbin from the package aod
Dear Sabine In negbin(aod), the deviance is calculated by: # full model logL.max - sum(dpois(x = y, lambda = y, log = TRUE)) # fitted model logL - -res$value dev - -2 * (logL - logL.max) (the log-Lik contain all the constants) As Ben Bolker said, whatever the formula used for deviance, differences between deviances of two models should be the same Regards -- -- Matthieu Lesnoff On 10/02/2011 18:00, sabwo wrote: I have fitted the faults.data to glm.nb and to the function negbin from the package aod. The output of both is the following: summary(glm.nb(n~ll, data=faults)) Call: glm.nb(formula = n ~ ll, data = faults, init.theta = 8.667407437, link = log) Deviance Residuals: Min 1Q Median 3Q Max -2.0470 -0.7815 -0.1723 0.4275 2.0896 Coefficients: Estimate Std. Error z value Pr(|z|) (Intercept) -3.7951 1.4577 -2.603 0.00923 ** ll0.9378 0.2280 4.114 3.89e-05 *** --- Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1 (Dispersion parameter for Negative Binomial(8.6674) family taken to be 1) Null deviance: 50.28 on 31 degrees of freedom Residual deviance: 30.67 on 30 degrees of freedom AIC: 181.39 Number of Fisher Scoring iterations: 1 Theta: 8.67 Std. Err.: 4.17 2 x log-likelihood: -175.387 the output of the function negbin with a global dispersion parameter should - when i understood it right - yield the same estimates as glm.nb. it does, with slightly little differences. negbin(n~ll,~1, data=faults) Negative-binomial model --- negbin(formula = n ~ ll, random = ~1, data = faults) Convergence was obtained after 112 iterations. Fixed-effect coefficients: Estimate Std. Errorz value Pr( |z|) (Intercept) -3.795e+00 1.421e+00 -2.671e+00 7.570e-03 ll 9.378e-01 2.221e-01 4.222e+00 2.417e-05 Overdispersion coefficients: Estimate Std. Error z value Pr( z) phi.(Intercept) 1.154e-01 5.56e-02 2.076e+00 1.895e-02 Log-likelihood statistics Log-lik nbpar df res. Deviance AIC AICc -8.77e+01 329 5.209e+01 1.814e+02 1.822e+02 The thing i really dont understand is why there is such a big difference between the deviances? (glm.nb = 30.67 and negbin=52.09?) Shouldnt they be nearly the same?? thanks for your help, sabine __ 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] Re. When is *interactive* data visualization useful to use?
Hello Antony, Thank you very much for your detailed answer! All of your points are valid and interesting to reflect upon. Regarding your note number (6), it's a very good point - I didn't think of it. It might be argued that because interactive data visualization can be faster then analytical programming, it might invite more visual hypothesis testing without counting your hypothesis were as when doing it with printed output - it's much clearer what the number of your hypothesis tests were. Regarding your note number (7) - I'd be happy for (non spatial) examples for interesting patterns found by interactive methods. Regarding the bug reports. So far I've filed one for ggobi: http://code.google.com/p/ggobi-documentation/issues/detail?id=37 Although since the last time the software was built was 2008, I'm not sure if anyone is even going to respond to the ticket... Cheers, Tal Contact Details:--- Contact me: tal.gal...@gmail.com | 972-52-7275845 Read me: www.talgalili.com (Hebrew) | www.biostatistics.co.il (Hebrew) | www.r-statistics.com (English) -- On Fri, Feb 11, 2011 at 3:55 PM, Antony Unwin un...@math.uni-augsburg.dewrote: Hello Tal, You asked *When is it helpful to use interactive plots? Either for data exploration (for ourselves) and data presentation (for a client)?* My answer: It's helpful for checking data quality, for exploration with and without clients, for checking results, and for data presenting. Notes: (1) It's difficult to explain interactive data visualization in print, demonstrations are so much more effective. (2) Interactive data visualization is fun, both for the analyst, and more important, for the dataset owners. You not only get better interaction with the data, you get better interaction with the scientists you cooperate with. They are prepared to contribute, because they can understand what is going on. That is not always the case with statistical models. (3) The key is not animation but direct manipulation. The aim is to be able to directly interact with all statistical objects in a graphic: querying, linking, reordering, reformatting, zooming, whatever. (4) You write of point-based graphics, what about area-based graphics like histograms, barcharts and mosaicplots? For categorical data the ability to select groups and look at spineplots of other variables to compare proportions is very effective. (And don't forget linking to maps for spatial data.) (5) You mention outliers. How do you decide what is an outlier? Interactive parallel coordinate plots are extremely useful, either for identifying outliers or for checking ones found with an analytic approach. (6) Interactive data visualization is not in competition with other approaches, it complements them. Results found with models should be checked graphically and results found graphically should be checked analytically. Your comment about data dredging is important, though why people think this only happens with graphics and not with modelling approaches always puzzles me! (7) There are often interesting features of a dataset (not just errors and outlier groups) that can be found graphically that would be difficult or impossible to find analytically. Have a look at Interactive Graphics for Data Analysis: Principles and Examples by Martin Theus and Simon Urbanek (Chapman Hall). There are some excellent explanations and case studies there. I could go on (and on), but what you really need is a good demo. Best regards Antony PS Have you reported the bugs in GGobi and Mondrian you have found to the software authors? Antony Unwin Professor of Computer-Oriented Statistics and Data Analysis, Mathematics Institute, University of Augsburg, 86135 Augsburg, Germany [[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] markov-switching models
I'm looking for Markov switching models, written in R. Does anyone know about programs? Thanks, Nanda [[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] From SPSS Syntax to R code
There is a code from SPSS Syntax do if sub(ATVK,2,2)=01. comp strata=1. else if sub(ATVK,2,2)=05 and sub(ATVK,2,2)=27. comp strata=3. else if sub(ATVK,4,2)20 or sub(ATVK,6,2)20. comp strata=4. else if sub(ATVK,4,2)00. comp strata=2. end if. value labels strata 1 R 2 Li 3 M 4 La. How can i rewrite it in R code? -- View this message in context: http://r.789695.n4.nabble.com/From-SPSS-Syntax-to-R-code-tp3302666p3302666.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] Time unit in ts() and arima() functions
This question is surely trivial, sorry. I'm afraid I'm misunterpreting the information I got with the documentation, and I'm a little bit confused. I'm just an engineer with some little skills in statistics. Well, I have a time series - 600 days long - with some weekly periodicity inside. So far, so good. Well, if I define the time series with, say : a - ts(b, frequency = 7) and I do plot(a), each unit of time seems to be a week, not a day, which is coherent with help(ts) which says frequency: the number of observations per unit of time. but this isn't what I want. I'd like to retrieve seasonal information but, as I'd like to retrieve also day to day information, the time unit should remain one day. Also, when I use the arima(...) function to fit a model (almost the same kind of algorithm which appeared here some days ago), and I specify in the seas= parameter, frequency = 7, or frequency = frequency(a) (a is the time series), I can get arN, maN, sarN, smaN... coefficients. What unit shall be applied to these coefficients ? One day or one week ? Logically (and ideally), for me, one day for arN and maN and one week for sarX and smaX coefficients, but I'm not sure. I have the same kind of doubt about lag units when I apply the acf() function to the time series (a) or the residuals returned by the arima() function. Thanks for your answer. __ 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] From SPSS Syntax to R code
You might want to take a look at Bob Muenchen's book R for SAS and SPSS Users There is an 80 page preview at .. http://rforsasandspssusers.com/ Additionally, there is lots of documentation for getting started with R on the CRAN website http://cran.r-project.org/ HTH Pete -- View this message in context: http://r.789695.n4.nabble.com/From-SPSS-Syntax-to-R-code-tp3302666p3302707.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] From SPSS Syntax to R code
Hi, instead of sub, use substr in R, also look for 'which' and 'factor' in the manual. E.g.: ?substr ?which ?factor I hope this could help you to rewrite the SPSS syntax in R. Good luck! Best, Gergely On Sat, Feb 12, 2011 at 2:08 PM, beky b...@inbox.lv wrote: There is a code from SPSS Syntax do if sub(ATVK,2,2)=01. comp strata=1. else if sub(ATVK,2,2)=05 and sub(ATVK,2,2)=27. comp strata=3. else if sub(ATVK,4,2)20 or sub(ATVK,6,2)20. comp strata=4. else if sub(ATVK,4,2)00. comp strata=2. end if. value labels strata 1 R 2 Li 3 M 4 La. How can i rewrite it in R code? -- View this message in context: http://r.789695.n4.nabble.com/From-SPSS-Syntax-to-R-code-tp3302666p3302666.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] problem with installing packages
On 11.02.2011 16:14, xin shi wrote: Dear: I am recnetly trying to install some libraries. However, I found this issue for both my laptop and desktop even I uninstall and install it again. I even can not update the R now. I wonder if you have the similar issue. Do you have a) internet connection and b) are you sure you are not behind a proxy or configured R to deal with the proxy otherwise? Uwe Ligges Thakns! Xin chooseCRANmirror() Warning message: In open.connection(con, r) : unable to connect to 'cran.r-project.org' on port 80. setRepositories() utils:::menuInstallPkgs() Warning: unable to access index for repository http://www.stats.bris.ac.uk/R/bin/windows/contrib/2.12 Warning: unable to access index for repository http://www.stats.ox.ac.uk/pub/RWin/bin/windows/contrib/2.12 Error in install.packages(NULL, .libPaths()[1L], dependencies = NA, type = type) : no packages were specified [[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-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] Data manipulation
Hi, I have a dataset with info on individuals (B) that have been involved in projects (A) during multiple years (C). The dataset contains three columns: A, B, C. Example: A B C 1 1 a 1999 2 1 b 1999 3 1 c 1999 4 2 c 2001 5 2 d 2001 6 3 a 2004 7 3 b 2004 I am interested in the average tenure of all individuals for each project (assuming that the tenure of an individual = 0 in the first project this individual is involved in). So based on the data above: A D 1 1 0 2 2 1 3 3 5 where D = average project tenure. How do I do this? Your help is very much appreciated. Thanks! -- View this message in context: http://r.789695.n4.nabble.com/Data-manipulation-tp3302717p3302717.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] Time unit in ts() and arima() functions
On Sat, Feb 12, 2011 at 7:48 AM, Jose-Marcio Martins da Cruz jose-marcio.mart...@mines-paristech.fr wrote: This question is surely trivial, sorry. I'm afraid I'm misunterpreting the information I got with the documentation, and I'm a little bit confused. I'm just an engineer with some little skills in statistics. Well, I have a time series - 600 days long - with some weekly periodicity inside. So far, so good. Well, if I define the time series with, say : a - ts(b, frequency = 7) and I do plot(a), each unit of time seems to be a week, not a day, which is coherent with help(ts) which says frequency: the number of observations per unit of time. but this isn't what I want. I'd like to retrieve seasonal information but, as I'd like to retrieve also day to day information, the time unit should remain one day. Also, when I use the arima(...) function to fit a model (almost the same kind of algorithm which appeared here some days ago), and I specify in the seas= parameter, frequency = 7, or frequency = frequency(a) (a is the time series), I can get arN, maN, sarN, smaN... coefficients. What unit shall be applied to these coefficients ? One day or one week ? Logically (and ideally), for me, one day for arN and maN and one week for sarX and smaX coefficients, but I'm not sure. I have the same kind of doubt about lag units when I apply the acf() function to the time series (a) or the residuals returned by the arima() function. Functions which work with ts typically assume that a full cycle is represented by 1 unit so if a full cycle is a week then a week must be one unit and a day must be 1/7th of a unit; however, you can later convert your series to a non-ts representation which supports dates. For example, b - 101:121 a - ts(b, frequency = 7); a Time Series: Start = c(1, 1) End = c(3, 7) Frequency = 7 [1] 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 [20] 120 121 time(a) Time Series: Start = c(1, 1) End = c(3, 7) Frequency = 7 [1] 1.00 1.142857 1.285714 1.428571 1.571429 1.714286 1.857143 2.00 [9] 2.142857 2.285714 2.428571 2.571429 2.714286 2.857143 3.00 3.142857 [17] 3.285714 3.428571 3.571429 3.714286 3.857143 # suppose start date is today library(zoo) z - zooreg(coredata(a), start = Sys.Date()); z 2011-02-12 2011-02-13 2011-02-14 2011-02-15 2011-02-16 2011-02-17 2011-02-18 101102103104105106107 2011-02-19 2011-02-20 2011-02-21 2011-02-22 2011-02-23 2011-02-24 2011-02-25 108109110111112113114 2011-02-26 2011-02-27 2011-02-28 2011-03-01 2011-03-02 2011-03-03 2011-03-04 115116117118119120121 -- Statistics Software Consulting GKX Group, GKX Associates Inc. tel: 1-877-GKX-GROUP email: ggrothendieck at gmail.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] Test for equivalence
Hi! is there a way in R to check whether the outcome of two different experiments is statistically distinguishable or indistinguishable? More preciously, I used the wilcoxon test to determine the differences between controls and treated subjects for two different experiments. Now I would like to check whether the two lists of analytes obtained are statistically distinguishable or indistinguishable I tried to use a equivalence test from the 'equivalence' package in R but it seems that this test is not applicable to my problem. The test in the 'equivalence' package just determines similarity between two conditions but I need to compare the outcome of two different experiments. My experiments are constructed as follows: Exp1: 8 control samples 8 treated samples - determine significantly changes (List A) Exp2: 8 control samples 8 treated samples - determine significantly changes (List B) Now i would like to check whether List A and List B are distinguishable or indistinguishable. Any advice is very much appreciated! Best, beginner -- View this message in context: http://r.789695.n4.nabble.com/Test-for-equivalence-tp3302739p3302739.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] Revolution Analytics reading SAS datasets
Another option is to use StatTransfer which is a commercial data
exchange product from Circle Systems:
http://www.stattransfer.com
That's the basis of the import/export in S-PLUS:
http://www.stattransfer.com/stattransfer/developers.html
I wouldn't be surprised if it's also being used by Revolution, in which
case it isn't their intellectual property so they aren't in a position
to release the source code.
Charlie Roosen
Mango Solutions
-Original Message-
From: r-help-boun...@r-project.org [mailto:r-help-boun...@r-project.org]
On Behalf Of Gong-Yi Liao
Sent: 11 February 2011 17:42
To: Chao(Charlie) Huang
Cc: r-help@r-project.org
Subject: Re: [R] Revolution Analytics reading SAS datasets
If you have SAS, You can read Dr. Harrell's page:
http://biostat.mc.vanderbilt.edu/wiki/Main/SASexportHowto
if not, you can take a look on WPS:
http://www.teamwpc.co.uk/products
On Fri, 2011-02-11 at 10:32 -0600, Chao(Charlie) Huang wrote:
I am right now using Revolution R Enterprise 4.2. Could somebody show
me how to import/export SAS datasets. Thanks.
--
Gong-Yi Liao
Department of Statistics
University of Connecticut
215 Glenbrook Road U4120
Storrs, CT 06269-4120
860-486-9478
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and provide commented, minimal, self-contained, reproducible code.
Re: [R] linear models with factors
I already responded to your identical post yesterday, asking you to actually ask a question. can you please help me? is not enough. Best, Ista On Sat, Feb 12, 2011 at 5:57 AM, ATANU ata.s...@gmail.com wrote: i am trying to fit a linear model with both continuous covariates and factors. When fitted with the intercept term the first level of the factor is treated by R as intercept and the estimate of the effects of remaining levels(say i th level) are given as true estimate of i th level - estimate of 1st level. i want the estimates of coefficients of each level along with the intercept term(general effect).can anyone please help me? thanks in advance. -- View this message in context: http://r.789695.n4.nabble.com/linear-models-with-factors-tp3302404p3302404.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. -- Ista Zahn Graduate student University of Rochester Department of Clinical and Social Psychology http://yourpsyche.org __ 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] linear models with factors
Well, I may have been too hasty there. Actually the question was slightly improved. I think you are looking for ?contr.sum Best, Ista On Sat, Feb 12, 2011 at 3:55 PM, Ista Zahn iz...@psych.rochester.edu wrote: I already responded to your identical post yesterday, asking you to actually ask a question. can you please help me? is not enough. Best, Ista On Sat, Feb 12, 2011 at 5:57 AM, ATANU ata.s...@gmail.com wrote: i am trying to fit a linear model with both continuous covariates and factors. When fitted with the intercept term the first level of the factor is treated by R as intercept and the estimate of the effects of remaining levels(say i th level) are given as true estimate of i th level - estimate of 1st level. i want the estimates of coefficients of each level along with the intercept term(general effect).can anyone please help me? thanks in advance. -- View this message in context: http://r.789695.n4.nabble.com/linear-models-with-factors-tp3302404p3302404.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. -- Ista Zahn Graduate student University of Rochester Department of Clinical and Social Psychology http://yourpsyche.org -- Ista Zahn Graduate student University of Rochester Department of Clinical and Social Psychology http://yourpsyche.org __ 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] linear models with factors
See ?contrasts and ?contr.sum By default, R uses contr.treatment, you want contr.sum Christophe On Sat, Feb 12, 2011 at 6:57 AM, ATANU ata.s...@gmail.com wrote: i am trying to fit a linear model with both continuous covariates and factors. When fitted with the intercept term the first level of the factor is treated by R as intercept and the estimate of the effects of remaining levels(say i th level) are given as true estimate of i th level - estimate of 1st level. i want the estimates of coefficients of each level along with the intercept term(general effect).can anyone please help me? thanks in advance. -- View this message in context: http://r.789695.n4.nabble.com/linear-models-with-factors-tp3302404p3302404.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. -- Christophe Pallier christo...@pallier.org tel: +33 (0)1 69 08 79 34 Unité de Neuroimagerie Cognitive INSERM-CEA, Neurospin center, F91191 Gif-sur-Yvette, France web site: http://www.unicog.org personal web site: www.pallier.org __ 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] linear models with factors
On Feb 12, 2011, at 11:16 AM, Ista Zahn wrote: Well, I may have been too hasty there. Actually the question was slightly improved. I think you are looking for ?contr.sum Another issue will arise besides what the switch of the contrasts -- The intercept is not a general effect but rather a combined intercept for all of the continuous terms estimated when they are simultaneous zero. (Only in the situation where the continuous variables had all been centered would this be anywhere near the general effect or grand mean. ) I infer that OP has been brought up in an anova tradition and has not made a proper transition to regression. Perhaps what could be explored is whether the predict() function is a path to enlightenment or at least partial satisfaction. ?predict OP: Try something along these lines with the names for the factor variables matching that of the original data and choosing a representative value or values for the continuous variables: predict(mdl, data.frame(lev1=factor(val1,val2,val3, levels=levels(dat $lev1)), lev2= ... etc etc=etc ), contin=median(dat$contin) ) ) Perhaps with expand.grid() if combinations are needed. -- david. er, David. Best, Ista On Sat, Feb 12, 2011 at 3:55 PM, Ista Zahn iz...@psych.rochester.edu wrote: I already responded to your identical post yesterday, asking you to actually ask a question. can you please help me? is not enough. Best, Ista On Sat, Feb 12, 2011 at 5:57 AM, ATANU ata.s...@gmail.com wrote: i am trying to fit a linear model with both continuous covariates and factors. When fitted with the intercept term the first level of the factor is treated by R as intercept and the estimate of the effects of remaining levels(say i th level) are given as true estimate of i th level - estimate of 1st level. i want the estimates of coefficients of each level along with the intercept term(general effect).can anyone please help me? thanks in advance. -- View this message in context: http://r.789695.n4.nabble.com/linear-models-with-factors-tp3302404p3302404.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. -- Ista Zahn Graduate student University of Rochester Department of Clinical and Social Psychology http://yourpsyche.org -- Ista Zahn Graduate student University of Rochester Department of Clinical and Social Psychology http://yourpsyche.org __ 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. David Winsemius, MD West Hartford, CT __ 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] Data manipulation
mathijsdevaan mathijsdev...@gmail.com [Sat, Feb 12, 2011 at 03:00:18PM CET]: Hi, I have a dataset with info on individuals (B) that have been involved in projects (A) during multiple years (C). The dataset contains three columns: A, B, C. Example: A B C 1 1 a 1999 2 1 b 1999 3 1 c 1999 4 2 c 2001 5 2 d 2001 6 3 a 2004 7 3 b 2004 I am interested in the average tenure of all individuals for each project (assuming that the tenure of an individual = 0 in the first project this individual is involved in). So based on the data above: A D 1 1 0 2 2 1 3 3 5 where D = average project tenure. How do I do this? I am not getting how you arrive at D calculating an average. Could you write down the arithmetic operations involved? -- Johannes Hüsing There is something fascinating about science. One gets such wholesale returns of conjecture mailto:johan...@huesing.name from such a trifling investment of fact. http://derwisch.wikidot.com (Mark Twain, Life on the Mississippi) __ 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] Data manipulation
Will this do it for you: x - read.table(textConnection( A B C + 1 1 a 1999 + 2 1 b 1999 + 3 1 c 1999 + 4 2 c 2001 + 5 2 d 2001 + 6 3 a 2004 + 7 3 b 2004), header = TRUE) closeAllConnections() # add a tenure column x$tenure - ave(x$C, x$B, FUN = function(yr) yr - min(yr)) x A BC tenure 1 1 a 1999 0 2 1 b 1999 0 3 1 c 1999 0 4 2 c 2001 2 5 2 d 2001 0 6 3 a 2004 5 7 3 b 2004 5 # compute tenure on project aggregate(x$tenure, list(project = x$A), mean) project x 1 1 0 2 2 1 3 3 5 On Sat, Feb 12, 2011 at 9:00 AM, mathijsdevaan mathijsdev...@gmail.com wrote: Hi, I have a dataset with info on individuals (B) that have been involved in projects (A) during multiple years (C). The dataset contains three columns: A, B, C. Example: A B C 1 1 a 1999 2 1 b 1999 3 1 c 1999 4 2 c 2001 5 2 d 2001 6 3 a 2004 7 3 b 2004 I am interested in the average tenure of all individuals for each project (assuming that the tenure of an individual = 0 in the first project this individual is involved in). So based on the data above: A D 1 1 0 2 2 1 3 3 5 where D = average project tenure. How do I do this? Your help is very much appreciated. Thanks! -- View this message in context: http://r.789695.n4.nabble.com/Data-manipulation-tp3302717p3302717.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. -- Jim Holtman Data Munger Guru What is the problem that you are trying to solve? __ 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] Linked List in R
Hi, I am trying to create a linked list in R by defining a class Node which has a instance variable Node. setClass(Node, representation(rate=numeric, nextNode=ANY)) The above works. But the following gives me a warning message. setClass(Node, representation(rate=numeric, nextNode=Node)) setClass(Node, representation(rate=numeric, nextNode=ANY)) [1] Node removeClass(Node) [1] TRUE setClass(Node, representation(rate=numeric, nextNode=Node)) [1] Node Warning message: undefined slot classes in definition of Node: nextNode(class Node) In the case when nextNode is type Node, is it possible to get ride of the above undefined slot classes warning message ? Thanks in advance for any assistance! Shing __ 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] Linked List in R
Why would you do this, when lists are fundamental types in R? --- Jeff Newmiller The . . Go Live... DCN:jdnew...@dcn.davis.ca.us Basics: ##.#. ##.#. Live Go... Live: OO#.. Dead: OO#.. Playing Research Engineer (Solar/Batteries O.O#. #.O#. with /Software/Embedded Controllers) .OO#. .OO#. rocks...1k --- Sent from my phone. Please excuse my brevity. Shing Hing Man mat...@yahoo.com wrote: Hi, I am trying to create a linked list in R by defining a class Node which has a instance variable Node. setClass(Node, representation(rate=numeric, nextNode=ANY)) The above works. But the following gives me a warning message. setClass(Node, representation(rate=numeric, nextNode=Node)) setClass(Node, representation(rate=numeric, nextNode=ANY)) [1] Node removeClass(Node) [1] TRUE setClass(Node, representation(rate=numeric, nextNode=Node)) [1] Node Warning message: undefined slot classes in definition of Node: nextNode(class Node) In the case when nextNode is type Node, is it possible to get ride of the above undefined slot classes warning message ? Thanks in advance for any assistance! Shing_ 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.
[R] Regarding {KernSmooth} - Can a package on CRAN have non GPL copyrights?
Hi all, I'm not sure who to ask this, so I'm posting this here. I just ran: require(KernSmooth) And got (I bolded the text): Loading required package: KernSmooth KernSmooth 2.23 loaded *Copyright M. P. Wand 1997-2009* Warning message: package 'KernSmooth' was built under R version 2.12.1 What does that mean? Thanks, Tal Contact Details:--- Contact me: tal.gal...@gmail.com | 972-52-7275845 Read me: www.talgalili.com (Hebrew) | www.biostatistics.co.il (Hebrew) | www.r-statistics.com (English) -- [[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] Linked List in R
On 02/12/2011 11:08 AM, Shing Hing Man wrote:
Hi,
I am trying to create a linked list in R by defining a class Node which has
a instance variable Node.
setClass(Node, representation(rate=numeric, nextNode=ANY))
The above works. But the following gives me a warning message.
setClass(Node, representation(rate=numeric, nextNode=Node))
setClass(Node, representation(rate=numeric, nextNode=ANY))
[1] Node
removeClass(Node)
[1] TRUE
setClass(Node, representation(rate=numeric, nextNode=Node))
[1] Node
Warning message:
undefined slot classes in definition of Node: nextNode(class Node)
In the case when nextNode is type Node, is it possible to get ride of the
above undefined slot classes warning message ?
Thanks in advance for any assistance!
Hi Shing --
Not really an answer to your question, but I guess linked lists give you
constant insert / linear search. The only data type in R with constant
insert time is an environment. Environments map keys to values, with
keys being character scalars. So (untested)
setClass(Node,representation(next=character, value=ANY))
setClass(LinkedList,
representation(store=environment, head=character)))
environments are tricky because of their pass-by-reference semantic, and
to initialize the LinkedList class you'll want to write an initialize
method that creates a new environment for each instance
setMethod(initialize, LinkedList,
function(.Object, ..., store=new.env(parent=emptyenv()))
{
callNextMethod(.Object, ..., store=store)
})
you'd then write methods on the LinkedList class to insert / delete /
etc. Likely some new concepts in there but hopefully that helps...
For the node values, creating S4 objects can be very expensive and if
you are thinking of large linked lists that are frequently updated, you
might do well either to use simple lists or vectors to represent the
node values, or to rethink whether linked lists are what you need --
they're not a very friendly R data structure.
And since the LinkedList class is based on an environment, it has
reference semantics that will confuse R users.
Martin
Shing
__
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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.
--
Computational Biology
Fred Hutchinson Cancer Research Center
1100 Fairview Ave. N. PO Box 19024 Seattle, WA 98109
Location: M1-B861
Telephone: 206 667-2793
__
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] Regarding {KernSmooth} - Can a package on CRAN have non GPL copyrights?
On Sat, Feb 12, 2011 at 11:57 AM, Tal Galili tal.gal...@gmail.com wrote: Hi all, I'm not sure who to ask this, so I'm posting this here. I just ran: require(KernSmooth) And got (I bolded the text): Loading required package: KernSmooth KernSmooth 2.23 loaded *Copyright M. P. Wand 1997-2009* Warning message: package 'KernSmooth' was built under R version 2.12.1 What does that mean? There are many licenses used on CRAN, such as BSD, MIT, GPL, LGPL, and public domain. There are even some that aren't really open source at all such as 'akima' and 'SparseM'. These packages make additional restrictions such as that a license is only granted for academic / non-commercial use. It's particularly annoying that many other packages without such restrictions depend on these packages, making it pretty difficult to ensure license compliance for companies using R. The fact that the code is Copyright by that author is somewhat orthogonal to the license he chooses to distribute it under. See the LICENSE file. In this case, it's much more open than GPL -- it is completely unrestricted / public domain. After reading the license for the package you are interested in, you may like to read how those licenses are interpreted by e.g. http://www.opensource.org/licenses/index.html - Murray __ 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] Fw: Re: Linked List in R
--- On Sun, 13/2/11, Shing Hing Man mat...@yahoo.com wrote:
From: Shing Hing Man mat...@yahoo.com
Subject: Re: [R] Linked List in R
To: Martin Morgan mtmor...@fhcrc.org
Date: Sunday, 13 February, 2011, 4:49
Hi Martin,
Thanks for the pointer ! It seems quite involved to
create a
a linked list in the oo way. I need to read up on
environment.
Thanks!
Shing
--- On Sun, 13/2/11, Martin Morgan mtmor...@fhcrc.org
wrote:
From: Martin Morgan mtmor...@fhcrc.org
Subject: Re: [R] Linked List in R
To: Shing Hing Man mat...@yahoo.com
Cc: r-help@r-project.org
Date: Sunday, 13 February, 2011, 4:10
On 02/12/2011 11:08 AM, Shing Hing
Man wrote:
Hi,
I am trying to create a linked list
in R by defining a class Node which has a instance
variable
Node.
setClass(Node,
representation(rate=numeric,
nextNode=ANY))
The above works. But the following gives me a
warning
message.
setClass(Node,
representation(rate=numeric,
nextNode=Node))
setClass(Node,
representation(rate=numeric, nextNode=ANY))
[1] Node
removeClass(Node)
[1] TRUE
setClass(Node,
representation(rate=numeric, nextNode=Node))
[1] Node
Warning message:
undefined slot classes in definition of Node:
nextNode(class Node)
In the case when nextNode is type Node, is it
possible
to get ride of the above undefined slot classes
warning message ?
Thanks in advance for any assistance!
Hi Shing --
Not really an answer to your question, but I guess
linked
lists give you
constant insert / linear search. The only data type in
R
with constant
insert time is an environment. Environments map keys
to
values, with
keys being character scalars. So (untested)
setClass(Node,representation(next=character,
value=ANY))
setClass(LinkedList,
representation(store=environment,
head=character)))
environments are tricky because of their
pass-by-reference
semantic, and
to initialize the LinkedList class you'll want to
write an
initialize
method that creates a new environment for each
instance
setMethod(initialize, LinkedList,
function(.Object, ...,
store=new.env(parent=emptyenv()))
{
callNextMethod(.Object, ..., store=store)
})
you'd then write methods on the LinkedList class to
insert
/ delete /
etc. Likely some new concepts in there but hopefully
that
helps...
For the node values, creating S4 objects can be very
expensive and if
you are thinking of large linked lists that are
frequently
updated, you
might do well either to use simple lists or vectors
to
represent the
node values, or to rethink whether linked lists are
what
you need --
they're not a very friendly R data structure.
And since the LinkedList class is based on an
environment,
it has
reference semantics that will confuse R users.
Martin
Shing
__
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.
--
Computational Biology
Fred Hutchinson Cancer Research Center
1100 Fairview Ave. N. PO Box 19024 Seattle, WA 98109
Location: M1-B861
Telephone: 206 667-2793
__
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] linear models with factors
Ummm... The simple answer to your question: i want the estimates of coefficients of each level along with the intercept term(general effect).can anyone please help me? is no, because it's matrhematically impossible. You need to consult a local statistician or read up on linear models and contrast in statistics to understand why. -- Bert __ 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] extracting p-values from the Manova function (car library)
thanks that worked out tina :-) On Fri, 11 Feb 2011 12:21:19 -0500, Ista Zahn iz...@psych.rochester.edu wrote: Hi, one approach is to modify getAnywhere(print.Anova.mlm) to return the information you want. Best, Ista On Fri, Feb 11, 2011 at 7:16 AM, Bettina Kulle Andreassen b.k.andreas...@medisin.uio.no wrote: hi, i am not able to extract the p-values from the Manova function in the car library. I need to use this function in a high-throughput setting and somehow need the p-values produced. Any ideas? Best regards Bettina Kulle Andreassen -- Bettina Kulle Andreassen University of Oslo Department of Biostatistics and Institute for Epi-Gen (Faculty Division Ahus) tel: +47 22851193 +47 67963923 __ 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] use map.axes for a projected map
Hi, I am new to R and I want to display longitude and latitude for a projected map. map.axes won't do it since it only works for unprojected map. Can anyone help me with this? Thanks, Sybil -- View this message in context: http://r.789695.n4.nabble.com/use-map-axes-for-a-projected-map-tp3302918p3302918.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] Regarding {KernSmooth} - Can a package on CRAN have non GPL copyrights?
AFAIK CRAN does not explicitly require use of a GPL license (though obviously the license needs to allow at least free access to the packages and source). On Sat, Feb 12, 2011 at 11:57 AM, Tal Galili tal.gal...@gmail.com wrote: Hi all, I'm not sure who to ask this, so I'm posting this here. I just ran: require(KernSmooth) And got (I bolded the text): Loading required package: KernSmooth KernSmooth 2.23 loaded *Copyright M. P. Wand 1997-2009* Warning message: package 'KernSmooth' was built under R version 2.12.1 What does that mean? Well, I think that is just a warning that it was built under a different version of R than you are currently running it under. If memory serves, the current KernSmooth is a port to R by Brian Ripley; that message suggests the original KernSmooth was copyrighted by M. P. Wand from 1997 until 2009 (probably the original author in S?). Cheers, Josh Thanks, Tal Contact Details:--- Contact me: tal.gal...@gmail.com | 972-52-7275845 Read me: www.talgalili.com (Hebrew) | www.biostatistics.co.il (Hebrew) | www.r-statistics.com (English) -- [[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. -- Joshua Wiley Ph.D. Student, Health Psychology University of California, Los Angeles http://www.joshuawiley.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] Data manipulation
That worked great! Thanks! -- View this message in context: http://r.789695.n4.nabble.com/Data-manipulation-tp3302717p3303001.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] Time unit in ts() and arima() functions
Thanks for the hint. Helped a lot Gabor Grothendieck wrote: On Sat, Feb 12, 2011 at 7:48 AM, Jose-Marcio Martins da Cruz Functions which work with ts typically assume that a full cycle is represented by 1 unit so if a full cycle is a week then a week must be one unit and a day must be 1/7th of a unit; however, you can later convert your series to a non-ts representation which supports dates. -- __ 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] out of sample forecast
Hello I have model that is: lm(y~ lag(x, -1) + lag(z, -1) so basically a time series regression with exogen variables And I want to make rolling out of sample forecasts, meaning that: I first use a subsample (e.g. 1990 -1995) for estimating, then I perform a one step ahead forecast, then I add one observation and make another one step ahead forecast and so on I have tried to work with rollapply and defining the model as arima(0,0,0) with xreg=lags of the other varibles, but that doesnt work. Please, if you could point me to a solution, your help is much appreciated! Chris __ 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] out of sample forecast
On Sat, Feb 12, 2011 at 4:08 PM, Paka yag pak...@web.de wrote: Hello I have model that is: lm(y~ lag(x, -1) + lag(z, -1) so basically a time series regression with exogen variables And I want to make rolling out of sample forecasts, meaning that: I first use a subsample (e.g. 1990 -1995) for estimating, then I perform a one step ahead forecast, then I add one observation and make another one step ahead forecast and so on I have tried to work with rollapply and defining the model as arima(0,0,0) with xreg=lags of the other varibles, but that doesnt work. Please, if you could point me to a solution, your help is much appreciated! See: http://stackoverflow.com/questions/4856555/iteratively-forecasting-dyn-models/4858364#4858364 -- Statistics Software Consulting GKX Group, GKX Associates Inc. tel: 1-877-GKX-GROUP email: ggrothendieck at gmail.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] Test for equivalence
Does it make sense for you to combine the 2 data sets and do a 2-way anova with treatment vs. control as one factor and experiment number as the other factor? Then you could test the interaction and treatment number factor to see if they make a difference. -- Gregory (Greg) L. Snow Ph.D. Statistical Data Center Intermountain Healthcare greg.s...@imail.org 801.408.8111 -Original Message- From: r-help-boun...@r-project.org [mailto:r-help-bounces@r- project.org] On Behalf Of syrvn Sent: Saturday, February 12, 2011 7:30 AM To: r-help@r-project.org Subject: [R] Test for equivalence Hi! is there a way in R to check whether the outcome of two different experiments is statistically distinguishable or indistinguishable? More preciously, I used the wilcoxon test to determine the differences between controls and treated subjects for two different experiments. Now I would like to check whether the two lists of analytes obtained are statistically distinguishable or indistinguishable I tried to use a equivalence test from the 'equivalence' package in R but it seems that this test is not applicable to my problem. The test in the 'equivalence' package just determines similarity between two conditions but I need to compare the outcome of two different experiments. My experiments are constructed as follows: Exp1: 8 control samples 8 treated samples - determine significantly changes (List A) Exp2: 8 control samples 8 treated samples - determine significantly changes (List B) Now i would like to check whether List A and List B are distinguishable or indistinguishable. Any advice is very much appreciated! Best, beginner -- View this message in context: http://r.789695.n4.nabble.com/Test-for- equivalence-tp3302739p3302739.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.
[R] calculate phase/amplitude of fourier transform function in R
I did a fourier transform on a function in time domain to get the following
functions in frequency domain (in latex):
$Y_1[\omega] = \frac{1}{1-\phi_1 e^{-jw}}$
$Y_2[\omega] = \frac{1}{1-(\phi_1 + \phi_2)e^{-jw} +\phi_1\phi_2e^{-2jw}}$
How do I find the spectrum of this function for given $\phi_1$ and $\phi_2$
coefficients and in the discretization interval $w = [-\pi:.1*\pi: \pi]$?
Then, how do I find the 'magnitude' of spectrum and 'phase' of spectrum in
R?
Is there an existing package/function in R? An example would be very
helpful.
--
View this message in context:
http://r.789695.n4.nabble.com/calculate-phase-amplitude-of-fourier-transform-function-in-R-tp3303345p3303345.html
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[R] Changes titles in ggplot2 plot
Dear Colleagues, In the following simple ggplot2 code: m - ggplot(d.fig, aes(time, prob)) m + stat_summary(fun.data = median_hilow, conf.int = .95, geom = smooth) + facet_wrap(~ Cohort, nrow=1) + coord_cartesian(ylim = c(0, .03)) Is there a way to replace the y-axis label from prob to Predicted Probability and replace the x-axis label from time to Time Elapsed? Many thanks. Best, Shige __ 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] Changes titles in ggplot2 plot
you can just probably add + labs(x=Time Elapsed,y=Predicted Probability) Felipe D. Carrillo Supervisory Fishery Biologist Department of the Interior US Fish Wildlife Service California, USA http://www.fws.gov/redbluff/rbdd_jsmp.aspx - Original Message From: Shige Song shiges...@gmail.com To: r-help Help r-help@r-project.org Sent: Sat, February 12, 2011 7:07:39 PM Subject: [R] Changes titles in ggplot2 plot Dear Colleagues, In the following simple ggplot2 code: m - ggplot(d.fig, aes(time, prob)) m + stat_summary(fun.data = median_hilow, conf.int = .95, geom = smooth) + facet_wrap(~ Cohort, nrow=1) + coord_cartesian(ylim = c(0, .03)) Is there a way to replace the y-axis label from prob to Predicted Probability and replace the x-axis label from time to Time Elapsed? Many thanks. Best, Shige __ 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. Now that's room service! Choose from over 150,000 hotels in 4[[elided Yahoo spam]] hoo.com/promo-generic-14795097 __ 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] Regarding {KernSmooth} - Can a package on CRAN have non GPL copyrights?
On Sat, 12 Feb 2011, Joshua Wiley wrote: AFAIK CRAN does not explicitly require use of a GPL license (though obviously the license needs to allow at least free access to the packages and source). GPL and the other licences are about distribution. CRAN requires a licence to allow it to distribute packages -- in some cases (e.g. mclust) that requires a CRAN exception. Copyright is an almost entirely orthogonal issue. In many countries all intellectual creation is copyright -- this message is, R itself is, my packages are (including my contributions to KernSmooth) -- and that does not need to stated. Matt Wand has chosen to assert his copyright in the startup message. A closely related concept you will see in British books is that 'X has asserted his moral right to be identified as the author of this work'. With the freedoms that Open Source licences give goes a moral responsibility to give due credit, something we see **far** too little of here. On Sat, Feb 12, 2011 at 11:57 AM, Tal Galili tal.gal...@gmail.com wrote: Hi all, I'm not sure who to ask this, so I'm posting this here. I just ran: require(KernSmooth) And got (I bolded the text): Loading required package: KernSmooth KernSmooth 2.23 loaded *Copyright M. P. Wand 1997-2009* Warning message: package 'KernSmooth' was built under R version 2.12.1 What does that mean? Well, I think that is just a warning that it was built under a different version of R than you are currently running it under. If memory serves, the current KernSmooth is a port to R by Brian Ripley; that message suggests the original KernSmooth was copyrighted by M. P. Wand from 1997 until 2009 (probably the original author in S?). Cheers, Josh Thanks, Tal Contact Details:--- Contact me: tal.gal...@gmail.com | 972-52-7275845 Read me: www.talgalili.com (Hebrew) | www.biostatistics.co.il (Hebrew) | www.r-statistics.com (English) -- [[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. -- Joshua Wiley Ph.D. Student, Health Psychology University of California, Los Angeles http://www.joshuawiley.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. -- Brian D. Ripley, rip...@stats.ox.ac.uk Professor of Applied Statistics, http://www.stats.ox.ac.uk/~ripley/ University of Oxford, Tel: +44 1865 272861 (self) 1 South Parks Road, +44 1865 272866 (PA) Oxford OX1 3TG, UKFax: +44 1865 272595__ R-help@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.
