Re: [R] Stats help with calculating between and within subject variance and confidence intervals
Thanks for the insight Bert. The data I quoted are an example from a book(so I've got actual answers to compare to), but for my ultimate purpose (analytical method development) there would typically be 3-6 replicate readings from each of 4-6 runs, which is on a similar scale. I'll look into the lme functions. Thanks Paul. Bert Gunter wrote: Paul: If these data are real -- or at least a reasonable facsimile -- then even though the machines might be considered random -- i.e. a sample from a potential population of machines -- there are too few of them to get a reasonable estimate of their variance. Better to treat them as fixed and just do a standard oneway anova with a single within = residual error component. Incidentally, this situation is quite common in gauge RR = analytical method development studies. While the problem is unavoidable -- you only have so many machines or operators or whatever -- it is unfortunate that standard statistical references do not point out that it's just basically silly to try to estimate variance components with so few df, the resulting confidence intervals, as here, being so wide as to be useless (reflecting the inadequate information). Incidentally, a better way to get at this when there are sufficient df is via the lme() function in the nlme package -- it will work with unbalanced data and not just in the balanced data situation. But there would be a considerable learning curve required, I realize. Cheers, Bert Gunter Genentech Nonclinical Biostatistics -Original Message- From: r-help-boun...@r-project.org [mailto:r-help-boun...@r-project.org] On Behalf Of Paul Sent: Wednesday, September 09, 2009 1:38 PM To: R-help@r-project.org Subject: [R] Stats help with calculating between and within subject variance and confidence intervals Hello. I'm trying to find a way in R to calculate between and within subject variances and confidence intervals for some analytical method development data. I've found a reference to a method in Burdick, R. K. Graybill, F. A. 1992, Confidence Intervals on variance components, CRC Press. This example is for Balanced Data confidence interval calculation from Pg 62. The data are fill weights from bottles sampled randomly from a sample of four filling machines. There are 12 values, and the confidence intervals are for 1-2a = 95%. I have got the same results as the book but using slightly different fomulae (see variables for H1, G1 and H12 and G12). I'd appreciate any help, and any comments on whether their is a better way to do this. Thanks Paul. snip __ 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] ggplot2: mixing colour and linetype in geom_line
many thanks Felipe I didn't know the melt function. I'll have a close look at it. Regards/Cordialement Benoit Boulinguiez -Message d'origine- De : Felipe Carrillo [mailto:mazatlanmex...@yahoo.com] Envoyé : mercredi 9 septembre 2009 20:40 À : r-help@r-project.org; Benoit Boulinguiez Objet : Re: [R] ggplot2: mixing colour and linetype in geom_line Is this what you want? x - structure(list(Temp = c(25.9765, 26.57025, 27.164, 27.7565, 28.34892, 28.94142, 29.53125, 30.12233, 30.71483, 31.30983, 31.90233, 32.49475, 33.08458, 33.67575, 34.26558, 34.85933, 35.45183, 36.04683, 36.63933, 37.23042, 37.82417, 38.414), X22 = c(4.62e-12, 4.73e-12, 4.62e-12, 4.57e-12, 4.64e-12, 4.71e-12, 4.7e-12, 4.64e-12, 4.71e-12, 4.51e-12, 4.52e-12, 4.47e-12, 4.58e-12, 4.56e-12, 4.53e-12, 4.54e-12, 4.55e-12, 4.54e-12, 4.53e-12, 4.5e-12, 4.55e-12, 4.57e-12), X43 = c(6.14e-11, 6.11e-11, 6.04e-11, 6.06e-11, 6.01e-11, 6.01e-11, 5.93e-11, 5.91e-11, 5.91e-11, 5.88e-11, 5.8e-11, 5.8e-11, 5.79e-11, 5.75e-11, 5.74e-11, 5.7e-11, 5.67e-11, 5.66e-11, 5.61e-11, 5.57e-11, 5.58e-11, 5.57e-11 ), X44 = c(3.93e-10, 3.91e-10, 3.91e-10, 3.9e-10, 3.89e-10, 3.88e-10, 3.87e-10, 3.86e-10, 3.85e-10, 3.85e-10, 3.85e-10, 3.83e-10, 3.83e-10, 3.82e-10, 3.8e-10, 3.8e-10, 3.79e-10, 3.78e-10, 3.77e-10, 3.77e-10, 3.76e-10, 3.75e-10), X45 = c(1.29e-11, 1.28e-11, 1.27e-11, 1.27e-11, 1.28e-11, 1.27e-11, 1.27e-11, 1.26e-11, 1.25e-11, 1.23e-11, 1.23e-11, 1.24e-11, 1.23e-11, 1.22e-11, 1.23e-11, 1.22e-11, 1.21e-11, 1.2e-11, 1.19e-11, 1.21e-11, 1.19e-11, 1.2e-11), X48 = c(2.05e-10, 2.05e-10, 2.05e-10, 2.03e-10, 2.03e-10, 2.02e-10, 2.02e-10, 2.01e-10, 2.01e-10, 2e-10, 1.99e-10, 1.99e-10, 1.98e-10, 1.97e-10, 1.97e-10, 1.96e-10, 1.96e-10, 1.95e-10, 1.94e-10, 1.94e-10, 1.94e-10, 1.92e-10), X58 = c(6.78e-12, 6.8e-12, 6.87e-12, 6.79e-12, 6.75e-12, 6.67e-12, 6.65e-12, 6.63e-12, 6.59e-12, 6.54e-12, 6.6e-12, 6.57e-12, 6.57e-12, 6.43e-12, 6.42e-12, 6.48e-12, 6.38e-12, 6.37e-12, 6.45e-12, 6.35e-12, 6.29e-12, 6.3e-12), X60 = c(9.31e-12, 9.43e-12, 9.28e-12, 9.26e-12, 9.18e-12, 9.24e-12, 9.2e-12, 9.11e-12, 9.17e-12, 9e-12, 9.09e-12, 8.95e-12, 9.02e-12, 8.89e-12, 8.97e-12, 8.93e-12, 8.86e-12, 8.9e-12, 8.85e-12, 8.82e-12, 8.86e-12, 8.8e-12)), .Names = c(Temp, X22, X43, X44, X45, X48, X58, X60), class = data.frame, row.names = c(1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22)) attach(x) xmelt - melt(x,id.vars=Temp);head(xmelt) qplot(Temp,value,colour=variable,linetype=variable,data=xmelt,geom=line) Felipe D. Carrillo Supervisory Fishery Biologist Department of the Interior US Fish Wildlife Service California, USA --- On Wed, 9/9/09, Benoit Boulinguiez benoit.boulingu...@ensc-rennes.fr wrote: From: Benoit Boulinguiez benoit.boulingu...@ensc-rennes.fr Subject: [R] ggplot2: mixing colour and linetype in geom_line To: r-help@r-project.org Date: Wednesday, September 9, 2009, 8:24 AM Hi all, I try to represent a multiple curve graphic where the x-axis is the temperature and the different y-axes are the different X (X22,X43,X44...) some X corresponds to the same molecule (22 and 44 are for CO2 for instance) so I use the same colour for them. I wanna mix the linetype with the colour to be able to visually see the difference between X43 and X45 The best I have done up to now is this code but it crashes with :Error in col2rgb(colour, TRUE) : invalid color name 'AA' if I skip the linetype in geom it works perfectly of course THT_N2_ATGMS_plot-ggplot(THT_N2_ATGMS,aes(x=Temp)) + # geom_line(aes(y=X22,colour=CO2)) + # geom_line(aes(y=X44,colour=CO2)) + geom_line(aes(y=X43,colour=AA,linetype=43)) + geom_line(aes(y=X45,colour=AA,linetype=45)) data set looks like: Temp X22 X43 X44 X45 X48 X58 X60 1 25.97650 4.62e-12 6.14e-11 3.93e-10 1.29e-11 2.05e-10 6.78e-12 9.31e-12 2 26.57025 4.73e-12 6.11e-11 3.91e-10 1.28e-11 2.05e-10 6.80e-12 9.43e-12 3 27.16400 4.62e-12 6.04e-11 3.91e-10 1.27e-11 2.05e-10 6.87e-12 9.28e-12 4 27.75650 4.57e-12 6.06e-11 3.90e-10 1.27e-11 2.03e-10 6.79e-12 9.26e-12 5 28.34892 4.64e-12 6.01e-11 3.89e-10 1.28e-11 2.03e-10 6.75e-12 9.18e-12 6 28.94142 4.71e-12 6.01e-11 3.88e-10 1.27e-11 2.02e-10 6.67e-12 9.24e-12 7 29.53125 4.70e-12 5.93e-11 3.87e-10 1.27e-11 2.02e-10 6.65e-12 9.20e-12 8 30.12233 4.64e-12 5.91e-11 3.86e-10 1.26e-11 2.01e-10 6.63e-12 9.11e-12 9 30.71483 4.71e-12 5.91e-11 3.85e-10 1.25e-11 2.01e-10 6.59e-12 9.17e-12 10 31.30983 4.51e-12 5.88e-11 3.85e-10 1.23e-11 2.00e-10 6.54e-12 9.00e-12 11 31.90233 4.52e-12 5.80e-11 3.85e-10 1.23e-11 1.99e-10 6.60e-12 9.09e-12 12 32.49475 4.47e-12 5.80e-11 3.83e-10 1.24e-11 1.99e-10 6.57e-12 8.95e-12 13 33.08458 4.58e-12 5.79e-11 3.83e-10 1.23e-11 1.98e-10 6.57e-12 9.02e-12 14 33.67575 4.56e-12 5.75e-11 3.82e-10 1.22e-11 1.97e-10 6.43e-12 8.89e-12 15 34.26558 4.53e-12
[R] [R-pkgs] new package MLCM: Maximum Likelihood Conjoint Measurement
This is to announce a new package MLCM on CRAN. The package provides functions for estimating perceptual scales by maximum likelihood from data collected in a conjoint measurement experiment. Data for conjoint measurement are typically collected using a psychophysical procedure. The stimuli vary along 2 or more dimensions. The observer views pairs of stimuli and judges which stimulus of each pair is higher on a specified dimension. For example, stimuli may be goods baskets containing amounts of milk and honey (dimensions) and the subject may order each pair of baskets by subjective desirability. This package contains tools to estimate the additive contribution of the n scales to the judgment by a maximum likelihood method under several hypotheses of how the perceptual dimensions interact. -- Ken Knoblauch Inserm U846 Stem-cell and Brain Research Institute Department of Integrative Neurosciences 18 avenue du Doyen Lépine 69500 Bron France tel: +33 (0)4 72 91 34 77 fax: +33 (0)4 72 91 34 61 portable: +33 (0)6 84 10 64 10 http://www.sbri.fr/members/kenneth-knoblauch.html ___ R-packages mailing list r-packa...@r-project.org https://stat.ethz.ch/mailman/listinfo/r-packages __ 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 percentage of random numbers for different classes
I am sorry for asking this stupid question, but i have been running in circles. I want to randomly generate a scaling point of between 1 and 10, for say hundred entries, where the first 10% percent is has rates between 2 and 7, the next 15% 3 and 7, 20% between 3 and 9, 20% between 3 and 10, 35% between 5 and 10. The problem is that i can only generate the usual 100 using runif function Something like this might work for you: # set total sample size to greater than or equal to 100 # and mod 0 wrt 100 to preserve the percentages # here say 200 ss=200 # Create a vector with the desired properties vector=c( sample(2:7,ss/10,replace=TRUE), sample(3:7,ss/15,replace=TRUE), sample(3:9,ss/20,replace=TRUE), sample(3:10,ss/20,replace=TRUE), sample(5:10,ss/10,replace=TRUE)) # print out the vector vector y-c(ceiling(10*runif(100))) y [1] 10 8 5 2 4 1 6 7 1 6 8 8 8 9 7 7 8 8 2 7 3 10 1 7 1 [26] 10 4 8 8 8 9 3 7 8 4 6 7 2 3 1 9 8 2 6 7 4 8 8 9 7 [51] 6 5 4 1 8 7 9 8 10 5 3 7 5 5 4 4 7 4 10 4 9 1 5 10 10 [76] 5 5 10 7 3 4 4 9 10 6 2 6 6 6 3 8 2 2 4 4 10 6 9 4 3 I just want to try to avoid small numbers as much as possible. I am open to suggestions, please please please. Kabeli [[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.
Re: [R] How to do rotation for polygon?
Hi everyone, I still couldn't get the diagram as I mentioned before. I try Grey and Milton suggestion but it confusing. I hope anyone helped me. Thanks in advance. Regards, Hema. On Thu, Sep 3, 2009 at 11:39 PM, Greg Snow greg.s...@imail.org wrote: The my.symbols and ms.polygon functions in the TeachingDemos package may help. -- 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-boun...@r- project.org] On Behalf Of Hemavathi Ramulu Sent: Wednesday, September 02, 2009 11:05 PM To: r-help@r-project.org Subject: [R] How to do rotation for polygon? Hi everyone, I have coding for repeating pentagon as below: plot(0:11,type=n) for (i in 1:10 )polygon(rep(c(4,5,7,8,6)), i*c(.5,.3,.3,.5,.7), bor=2) which are increasing vertically. Now, I want to know how to rotate the pentagon, so that I will get pattern like flower. Basicly, repeating pentagon in circle. Thanks alot for helping me to solve this problem. -- Hemavathi [[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. -- Hemavathi Ramulu [[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] Order of multiple plots
Hello all, I have a problem and need your help. I am going to draw two plots in one row and two columns by using “par(mfrow=c(1,2))”, but I want to first draw the right plot and then draw the left plot. Does anybody can show me how to do it please? Thanks in advance. Legen -- View this message in context: http://www.nabble.com/Order-of-multiple-plots-tp25377235p25377235.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] Facing error in loading dababase table
Abbas R. Ali wrote:
Hi
Facing error in loading dababase table. Folowing is my code:
library('RODBC')
channel = odbcConnect(dsn, , )
data1 = sqlQuery(channel, SELECT * FROM TABLE, as.is = TRUE)
odbcClose(channel)
The object data1 is there, you do not need to load it from a file!
Uwe Ligges
load(data1) # it is giving me error here that In data(data1) : data set 'data1'
not found
Can anyone tell its solution?
Thanks
Abbas
[[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.
Re: [R] SPSS Statistics-R Integration Plug-In
. The links are: R Sources - Windows - base - Previous Releases. The direct link is: http://cran.at.r- project.org/bin/windows/base/old/ That should of course read R Binaries - Windows - base - Previous Releases. __ 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 area reduction
Hi, I need my plot to occupy a thin strip-like area but the plot area in R is a square so when I save it and reduce its height to a strip in my document the font in the graph looks flattened. Is there someway i can do this in R itself?..so that my plot is a strip but the font looks normal -- Rajesh.J [[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] Joining Characters in R {issue with paste}
At 22:13 09/09/2009, Abhishek Pratap wrote: I did try ?paste and paste(a,b,separator=). same result Your second example pastes three strings together. a b and , the third of which you have named separator which is not the same as sep. Thanks, -Abhi On Wed, Sep 9, 2009 at 5:11 PM, milton ruser milton.ru...@gmail.com wrote: You not tryed ?paste :-) paste(a,b,sep=) bests milton On Wed, Sep 9, 2009 at 5:08 PM, Abhishek Pratap abhishek@gmail.comwrote: Hi Guys I am want to join to strings in R. I am using paste but not getting desirable result. For the sake of clarity, a quick example: a=Bio b=iology paste(a,b) [1] Bio iology *There is a SPACE in the word biology which is what I dont want * Thanks, -Abhi [[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.htmlhttp://www.r-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. [[alternative HTML version deleted]] Michael Dewey http://www.aghmed.fsnet.co.uk __ 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] Color index in image function
On Wed, 2009-09-09 at 02:33 -0700, FMH wrote: Thank you for the hints, but how could i add the grid lines which have numbers, representing the height of the volcano on the image. Thank you So I think this script is what you need Brazilan.Pallete - colorRampPalette(c(green,yellow, blue)) require(fileds) image.plot(volcano, col = Brazilan.Pallete(50), axes = FALSE) contour(volcano, levels = seq(90, 200, by = 5), add = TRUE) -- Bernardo Rangel Tura, M.D,MPH,Ph.D National Institute of Cardiology Brazil - Original Message From: Bernardo Rangel Tura t...@centroin.com.br To: FMH kagba2...@yahoo.com Sent: Tuesday, September 8, 2009 10:14:07 AM Subject: Re: [R] Color index in image function On Mon, 2009-09-07 at 07:59 -0700, FMH wrote: Thank you for the tips. I have manage to run your script, but was still never get the way to include the color index beside the image which could explain the intensity of the color from the lower index(green) to the higher index(blue). This color index might be represented by an increasing of color index in another table beside the image, started from green followed by green-yellow, yellow, yellow-blue and blue? Could someone please advice on this matter? Cheers Fir Hi FHM, Well If you desire one color index in a imageplot I don't know solve your problem. But in your scirptyou use image and image(x, y, volcano, col = terrain.colors(100), axes = FALSE) contour(x, y, volcano, levels = seq(90, 200, by = 5), add = TRUE, col = peru) In this case I suggest you use Brazilan.Pallete - colorRampPalette(c(green,yellow, blue)) filled.contour(volcano, color = Brazilan.Pallete) -- 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] Help on percentage of random numbers for different classes
Dear Robert Thank you very much for all the help, now i am enjoying working with all of you as you make R look simple and interesting. --- On Thu, 10/9/09, Robert Baer rb...@atsu.edu wrote: From: Robert Baer rb...@atsu.edu Subject: Re: [R] Help on percentage of random numbers for different classes To: KABELI MEFANE kabelimef...@yahoo.co.uk, R-help@r-project.org Date: Thursday, 10 September, 2009, 8:46 AM I am sorry for asking this stupid question, but i have been running in circles. I want to randomly generate a scaling point of between 1 and 10, for say hundred entries, where the first 10% percent is has rates between 2 and 7, the next 15% 3 and 7, 20% between 3 and 9, 20% between 3 and 10, 35% between 5 and 10. The problem is that i can only generate the usual 100 using runif function Something like this might work for you: # set total sample size to greater than or equal to 100 # and mod 0 wrt 100 to preserve the percentages # here say 200 ss=200 # Create a vector with the desired properties vector=c( sample(2:7,ss/10,replace=TRUE), sample(3:7,ss/15,replace=TRUE), sample(3:9,ss/20,replace=TRUE), sample(3:10,ss/20,replace=TRUE), sample(5:10,ss/10,replace=TRUE)) # print out the vector vector y-c(ceiling(10*runif(100))) y [1] 10 8 5 2 4 1 6 7 1 6 8 8 8 9 7 7 8 8 2 7 3 10 1 7 1 [26] 10 4 8 8 8 9 3 7 8 4 6 7 2 3 1 9 8 2 6 7 4 8 8 9 7 [51] 6 5 4 1 8 7 9 8 10 5 3 7 5 5 4 4 7 4 10 4 9 1 5 10 10 [76] 5 5 10 7 3 4 4 9 10 6 2 6 6 6 3 8 2 2 4 4 10 6 9 4 3 I just want to try to avoid small numbers as much as possible. I am open to suggestions, please please please. Kabeli [[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. [[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] Order of multiple plots
I think you can try this: par(mfrow=c(1,2)) plot(1, type = 'n', axes = FALSE, xlab = '', ylab = '') plot(1, type = 'n', axes = FALSE, xlab = '', ylab = '') par(mfg = c(1, 2)) plot(rnorm(10)) On Thu, Sep 10, 2009 at 1:49 AM, legen lege...@gmail.com wrote: Hello all, I have a problem and need your help. I am going to draw two plots in one row and two columns by using par(mfrow=c(1,2)), but I want to first draw the right plot and then draw the left plot. Does anybody can show me how to do it please? Thanks in advance. Legen -- View this message in context: http://www.nabble.com/Order-of-multiple-plots-tp25377235p25377235.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. -- Henrique Dallazuanna Curitiba-Paraná-Brasil 25° 25' 40 S 49° 16' 22 O [[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 area reduction
On 09/10/2009 08:10 PM, rajesh j wrote: Hi, I need my plot to occupy a thin strip-like area but the plot area in R is a square so when I save it and reduce its height to a strip in my document the font in the graph looks flattened. Is there someway i can do this in R itself?..so that my plot is a strip but the font looks normal Hi Rajesh, Just start the device with the aspect you want: x11(height=2) OR png(myplot.png,height=150) 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] Build a connectivity between .NET and R without using any interface
Dear All I like to develop an application using .NET and R. The front end would be .NET and statistical analysis would be done in R in the back end. So I want to integrate .NET(VB) with R without using any interface (e.g., R (D)com) to control. Secondly, I like to use Rscript (by calling .R files) from VB .NET environment for the analysis. Finally, I want to display the R-outputs including graphs on .NET controls (UI). Please help me out. Thank you in advance. Regards Amitava =-=-= Notice: The information contained in this e-mail message and/or attachments to it may contain confidential or privileged information. If you are not the intended recipient, any dissemination, use, review, distribution, printing or copying of the information contained in this e-mail message and/or attachments to it are strictly prohibited. If you have received this communication in error, please notify us by reply e-mail or telephone and immediately and permanently delete the message and any attachments. Thank you [[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] lag a data.frame column?
Mark Knecht wrote (09.Sep.2009 at 10:43 -0700): Sometimes it's the simple things... Why doesn't this lag X$x by 3 and place it in X$x1? (i.e. - Na's in the first 3 rows and then values showing up...) The help page does talk about time series. If lag doesn't work on data.frame columns then what would be the right function to use to lag by a variable amount? Thanks, Mark X=data.frame(x=seq(1:10)) X$x1=lag(X$x, 3) X I think the embed function might be helpful for you, embed(1:10 , dimension = 3) Best, AS __ 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] Order a vector and move to new vector
I currently have a data frame with a Fund ID and NAV value. Is it possible to order the data frame and move to separate columns in a new data frame or matrix in R without using a for loop? I suppose I'd like to use a built in function to make it faster because I will have around 60,000 entries to sort and my current program takes too long to do this. I know how to use order, but is there a way to separate the result and place into new vectors of a matrix or data frame? Thanks Conrad Here are my vectors which I import from a csv file: ID UNAV #1694 999.89 #1696 999.9 #1694 999.87 #1696 999.88 #1694 999.84 #1696 999.86 #1694 999.82 #1696 999.84 #1694 999.79 #1696 999.82 #1694 999.71 #1696 999.75 #1694 999.69 #1696 999.73 #1694 999.66 #1696 999.71 #1694 999.64 #1696 999.69 #1694 999.61 #1696 999.67 #1694 999.54 #1696 999.7 #1694 999.51 #1696 1002.24 #1694 999.48 #1696 1012.14 #1694 999.46 #1696 1003.38 #1694 999.43 [[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] Insall package
Dear Sir Subject: - *Install rscproxy_1.3-1.tar.gz * I am working in Windows system. I was try to install *rscproxy* package in two way. *1.* install.packages (rscproxy_1.3-1.tar.gz), It shows the Warning: unable to access index for repository http://cran.pt.r-project.org/bin/windows/contrib/2.9 *2. * install.packages(C:/Program Files/R/rscproxy_1.3-1.tar.gz, repos = NULL) It also show warning ( Error in gzfile(file, r) : cannot open the connection In addition: Warning messages: 1: In unzip(zipname, exdir = dest) : error 1 in extracting from zip file 2: In gzfile(file, r) : cannot open compressed file 'rscproxy_1.3-1.tar.gz/DESCRIPTION', probable reason 'No such file or directory' ) Could you please suggest, how to solve this problem, -- Wesley C Mathew [[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] Issue displaying DATES on a plot with two ordinates
Dear all,
I am having an issue with displaying the dates on a plot with two
ordinates (i.e. two differently scaled y-axes). Instead of dates
appearing on the x-axis I am instead seeing a string of numbers
(14460, 14465, 14470 and 14475).
example R code:
library(plotrix)
x.Left - as.Date(c('2009-08-04', '2009-08-08', '2009-08-11',
'2009-08-15', '2009-08-18'), format=%Y-%m-%d)
x.Right - as.Date(c('2009-08-05', '2009-08-09', '2009-08-12',
'2009-08-16', '2009-08-19'), format=%Y-%m-%d)
y.Left - c(70.13, 75.1, 74.35, 78.9, 80.92)
y.Right - c(35, 45, 50, 47, 53)
twoord.plot(x.Left, y.Left, x.Right, y.Right, xlab=Date, ylab=Trend
1, rylab=Trend 2, lwd=2, lcol='blue')
Thanks in advance for any help,
C.C.
P.S. I am aware of the criticisms of these sort of graphs, but they
are pretty. Also, they seem to be used a lot in meetings i've attended
recently.
Windows Vista
sessionInfo()
R version 2.9.2 (2009-08-24)
i386-pc-mingw32
locale:
LC_COLLATE=English_United Kingdom.1252;LC_CTYPE=English_United Kingdom.
1252;LC_MONETARY=English_United Kingdom.
1252;LC_NUMERIC=C;LC_TIME=English_United Kingdom.1252
attached base packages:
[1] stats graphics grDevices utils datasets methods
base
other attached packages:
[1] plotrix_2.7
__
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] Build a connectivity between .NET and R without using any interface
On 9/10/2009 8:40 AM, Amitava1 M wrote: Dear All I like to develop an application using .NET and R. The front end would be .NET and statistical analysis would be done in R in the back end. So I want to integrate .NET(VB) with R without using any interface (e.g., R (D)com) to control. Secondly, I like to use Rscript (by calling .R files) from VB .NET environment for the analysis. Finally, I want to display the R-outputs including graphs on .NET controls (UI). Please help me out. Thank you in advance. Those seem to be mostly questions about .NET -- you may be better off asking Microsoft. R's interface is described in the Writing R Extensions manual, assuming that a front-end would be written in C or some similar language. If you want to avoid the DCOM interface, you're going to have to work out how to make .NET act the way described in that manual. 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] Insall package
On 9/10/2009 6:44 AM, wesley mathew wrote: Dear Sir Subject: - *Install rscproxy_1.3-1.tar.gz * I am working in Windows system. I was try to install *rscproxy* package in two way. *1.* install.packages (rscproxy_1.3-1.tar.gz), It shows the Warning: unable to access index for repository http://cran.pt.r-project.org/bin/windows/contrib/2.9 *2. * install.packages(C:/Program Files/R/rscproxy_1.3-1.tar.gz, repos = NULL) It also show warning ( Error in gzfile(file, r) : cannot open the connection In addition: Warning messages: 1: In unzip(zipname, exdir = dest) : error 1 in extracting from zip file 2: In gzfile(file, r) : cannot open compressed file 'rscproxy_1.3-1.tar.gz/DESCRIPTION', probable reason 'No such file or directory' ) Could you please suggest, how to solve this problem, rscproxy is available on CRAN, so you could just use install.packages(rscproxy) and it would download and install the right version for you. If you really want to build from source, here are some instructions: On Windows, install.packages() assumes you're installing a binary package. .tar.gz indicates a source package, so you need to add type=source to the args to install.packages(), as well as repos=NULL. You don't mention installing the Rtools, so you may find even this doesn't work: installing a package needs a lot of tools that don't come with Windows. You can get them from www.murdoch-sutherland.com/Rtools. BTW, installing packages from source is rarely needed in Windows: you can get Uwe Ligges' system to convert the source to a binary for you, if it's straightforward. See http://win-builder.r-project.org/. (I have a feeling that rscproxy isn't a straightforward package, but I've never tried to build it.) 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] Xyplot, multi line title via main, all lines left justified
On Wed, Sep 9, 2009 at 2:53 PM, Afshartous, David dafshart...@med.miami.edu wrote: All, Below is an xyplot plot with multiple panels and a title produced via main: library(lattic) data.ex = data.frame(y = rnorm(10), t = rep(1:5, 2), group = rep(c(0,1), each = 5)) xyplot(y ~ t | as.factor(group), data = data.ex, main = list(Put figure caption here xx want this line left justified )) I must be mis-interpreting the help description for main under xyplot, and the descriptions of just, hjust, and vjust in textGrob, since manipulation of these arguments do not seem to produce the desired result of having the second line of text left-justified. This seems to work. You need to choose a suitable value of 'x', as the default will be to start at the center. xyplot(y ~ t | as.factor(group), data = data.ex, main = textGrob(Put figure caption here xx want this line left justified, x = 0, hjust = 0)) -Deepayan __ 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] Build a connectivity between .NET and R without using any interface
System.Diagnostics.Process in .Net can launch any program such as Rscript. If that is not enough of a pointer to get you going you need to post to a .Net group since this really is about .Net programming, not about R programming. On Thu, Sep 10, 2009 at 8:40 AM, Amitava1 M amitava...@tcs.com wrote: Dear All I like to develop an application using .NET and R. The front end would be .NET and statistical analysis would be done in R in the back end. So I want to integrate .NET(VB) with R without using any interface (e.g., R (D)com) to control. Secondly, I like to use Rscript (by calling .R files) from VB .NET environment for the analysis. Finally, I want to display the R-outputs including graphs on .NET controls (UI). Please help me out. Thank you in advance. Regards Amitava =-=-= Notice: The information contained in this e-mail message and/or attachments to it may contain confidential or privileged information. If you are not the intended recipient, any dissemination, use, review, distribution, printing or copying of the information contained in this e-mail message and/or attachments to it are strictly prohibited. If you have received this communication in error, please notify us by reply e-mail or telephone and immediately and permanently delete the message and any attachments. Thank you [[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] executing rscript from VB
Hi, I am looking to execute an R script from VB as below. The script runs fine but the redirection doesnt seem to happen. The redirection operator and the out file seem to be treated as arguments to the R script. Is there a way to get the operator working thanks, R System.Diagnostics.Process proc = new System.Diagnostics.Process(); proc.StartInfo.FileName = E:/R/bin/Rscript.exe; proc.StartInfo.Arguments = E:/R/bin/test.r test.out; proc.StartInfo.UseShellExecute = true; proc.Start(); __ 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] tranform a table?
hello everyone,
i'm new to R, so i hope you dont mind a fairly basic R question. we're
using R to manipulate the results of SQL queries and create an HTML output.
I'm starting with a table that looks essentially like this:
NameField1 Field2
John value1 value2
Jane value3 value4
My table is stored as a dataframe. I'd like to efficiently produce an
output that iterates through each row, transposes it and outputs an HTML
table (one per row). like this:
Name: John
Field1: value1
Field2: value2
Name: Jane
Field1: value3
Field2: value4
I can accomplish this by looping through each row, then outputting that
row's table. This gets the job done, but it seems there must be a better
way. I'm going to need to do this sort of conversion a lot,
so the simpler the better. is there a better way to approach it than the
code below? is there a more general term for the sort of transformation i'm
trying to make that might help guide my searching?
i realize i need to look into better methods of outputting HTML tables (like
r2html).
here's the basic idea. 'labkey.data' is the data frame produced by my SQL
query:
D-labkey.data
H-colnames(D)
T-t(D)
L-length(D$id)
output -
for(i in 1:L) {
R-my.row - D[i, ]
R-t(R)
Len-length(R)
output - paste(output, table border=0)
for(j in 1:Len) {
output - paste(output,trtd, H[j],:/tdtd, R[j], /td)
}
output - paste(output, /tablep)
}
write(output, file=${htmlout:output})
Thanks for any help.
--
View this message in context:
http://www.nabble.com/tranform-a-table--tp25382806p25382806.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] Listing all data instead of only k-elements when using combn-function
Hi dear reader, I've been searching the help-archive and found many topics with regard to the use of combinations, but I can't seem to make sense out of the advice given. So I posted my question here, my apologies that this has come up for many times before. Example data-set: Group Scores A5 A10 A9 B 2 B 3 I have 5 subjects. Those subjects are each assigned to a particular group, group A or group B. Each subject gets a score on a test (dependant variable). Now instead of just getting the mean of group A and group B of the sample I've drawn, I want to list all possible combinations (in this case 10 combinations, to eventually be able to compute for each combination, the mean of group A and group B. That is: Group [,1] [,2] . [,10] A5 5 9 A10 10 2 A9 2 3 B 2 9 5 B 3 3 10 combn does provide me with 10 possible combinations, but it only lists a part of the data: [,1] [,2] [,3] [,4] [,5] [,6] [,7] [,8] [,9] [,10] [1,] 5 5 5 5 5 5 10 10 10 9 [2,] 10 10 10 9 9 2 9 9 2 2 [3,] 9 2 3 2 3 3 2 3 3 3 Thanks a lot!! Sarah [[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] Intercept=0 in gam from gam package
Dear R list, is it possible to force the intercept to assume the value of 0 (that is no intercept) in gam from gam package? Regards -- Corrado Topi Global Climate Change Biodiversity Indicators Area 18,Department of Biology University of York, York, YO10 5YW, UK Phone: + 44 (0) 1904 328645, E-mail: ct...@york.ac.uk __ 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] Negative AIC
Dear R list, I just obtained a negative AIC for two models (-221.7E+4 and -230.2E+4). Is that normal? Regards -- Corrado Topi Global Climate Change Biodiversity Indicators Area 18,Department of Biology University of York, York, YO10 5YW, UK Phone: + 44 (0) 1904 328645, E-mail: ct...@york.ac.uk __ 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] Order of multiple plots
Rather than use par(mfro...) you should probably take a look at the alternative
layout approach. That allows you to give R a matrix (corresponding to panels
in the plot) containing the number of the plot to be placed in each panel.
It also allows unequal panel sizes.
See ?layout for details.
Steve E
legen lege...@gmail.com 10/09/2009 05:49:04
Hello all,
I have a problem and need your help.
I am going to draw two plots in one row and two columns by using
par(mfrow=c(1,2)), but I want to first draw the right plot and then draw
the left plot. Does anybody can show me how to do it please? Thanks in
adv
***
This email and any attachments are confidential. Any use...{{dropped:8}}
__
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-pkgs] new version of R-package mice
Dear R-users, Version V2.0 of the package mice is now available on CRAN for Windows, Linux and Apple users. Multivariate Imputation by Chained Equations (MICE) is the name of software for imputing incomplete multivariate data by Fully Conditional Specifcation (FCS). MICE V1.0 appeared in the year 2000 as an S-PLUS library, and in 2001 as an R package. MICE V1.0 introduced predictor selection, passive imputation and automatic pooling. MICE V2.0, which extends the functionality of MICE V1.0 in several ways. In MICE V2.0, the analysis of imputed data is made completely general, whereas the range of models under which pooling works is substantially extended. MICE V2.0 adds new functionality for imputing multilevel data, automatic predictor selection, data handling, post-processing imputed values, specialized pooling and model selection. Imputation of categorical data is improved in order to bypass problems caused by perfect prediction.Special attention to transformations, sum scores, indices and interactions using passive imputation, and to the proper setup of the predictor matrix. We have written also a complete new manual for mice, which can be downloaded from http://www.stefvanbuuren.nl/publications/MICE%20in%20R%20-%20Draft.pdf https://webmail.kpnplanet.nl/exchweb/bin/redir.asp?URL=http://www.stefvanbuuren.nl/publications/MICE%2520in%2520R%2520-%2520Draft.pdf This article/manual provides a hands-on, stepwise approach to using mice for solving incomplete data problems in real data. Best Regards, Karin Groothuis-Oudshoorn Stef van Buuren C.G.M. (Karin) Groothuis-Oudshoorn, Phd Assistent Professor University of Twente / Biostatistician Roessingh Research and Development c.g.m.oudsho...@utwente.nl mailto:c.g.m.oudsho...@utwente.nl / k.grooth...@rrd.nl mailto:k.grooth...@rrd.nl [[alternative HTML version deleted]] ___ R-packages mailing list r-packa...@r-project.org https://stat.ethz.ch/mailman/listinfo/r-packages __ 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] Intercept=0 in gam from gam package
On Thu, 2009-09-10 at 14:58 +0100, Corrado wrote: Dear R list, is it possible to force the intercept to assume the value of 0 (that is no intercept) in gam from gam package? Just like you would in lm or glm for example, by adding -1 to your formula. ?gam suggests you look at ?lm to see about the formulas for example. data(airquality) mod0 - gam(Ozone^(1/3) ~ lo(Solar.R) + lo(Wind, Temp) - 1, data = airquality, na = na.gam.replace) mod1 - gam(Ozone^(1/3) ~ lo(Solar.R) + lo(Wind, Temp), data = airquality, na = na.gam.replace) summary(mod0) summary(mod1) HTH G Regards -- %~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~% Dr. Gavin Simpson [t] +44 (0)20 7679 0522 ECRC, UCL Geography, [f] +44 (0)20 7679 0565 Pearson Building, [e] gavin.simpsonATNOSPAMucl.ac.uk Gower Street, London [w] http://www.ucl.ac.uk/~ucfagls/ UK. WC1E 6BT. [w] http://www.freshwaters.org.uk %~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~% __ 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] Running R in Windows server
Hi, I'm trying to set up a server which allows different users to use R simultaneously. Is it possible in Windows? I know that a LINUX Server is probably a better option, but I had already created a GUI with Tcl/tk in Windows. So some of the events don't work in LINUX. Thanks in advance, Srpd _ m só local. rk-connector.aspx [[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] executing rscript from VB
On 9/10/2009 9:25 AM, H Rao wrote: Hi, I am looking to execute an R script from VB as below. The script runs fine but the redirection doesnt seem to happen. The redirection operator and the out file seem to be treated as arguments to the R script. Is there a way to get the operator working That's a VB question. You should ask Microsoft. Duncan Murdoch thanks, R System.Diagnostics.Process proc = new System.Diagnostics.Process(); proc.StartInfo.FileName = E:/R/bin/Rscript.exe; proc.StartInfo.Arguments = E:/R/bin/test.r test.out; proc.StartInfo.UseShellExecute = true; proc.Start(); __ 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] fit arima long period alternatives
I'd like to fit a SARIMA model on a timeseries but the period I'd like to use is too big (7 day in 15min samples = 672) for the algorithm used in R. Some suggested alternatives? Thanks, Matteo Bertini [[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] lean text label below barplot table
#Example data df - data.frame(trt = factor(c(A long label, Another long \n label)), outcome = c(1,4)) #Install ggplot2 if needed library(ggplot2) p - ggplot(df, aes(y=outcome, x=trt)) p - p + geom_bar(position=dodge, stat=identity) p - p + opts(axis.text.x = theme_text(angle = 45, hjust=1)) p On Mon, Sep 7, 2009 at 5:03 PM, Xiaogang Yang gavinxy...@gmail.com wrote: Hi, everyone: I am plotting an graph with bar plot, but the label after every bar is too long, I wanna if I can draw the label lean to an angle thanks -- Xiaogang Yang Sensorweb Research Laboratory http://sensorweb.vancouver.wsu.edu/ Washington State University Vancouver [[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.htmlhttp://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] Running R in Windows server
srpd TCLTK wrote: Hi, I'm trying to set up a server which allows different users to use R simultaneously. Is it possible in Windows? Yes, I guess you want to use some Terminal Server. As for any other software, each user can start own instances of R. Uwe Ligges I know that a LINUX Server is probably a better option, but I had already created a GUI with Tcl/tk in Windows. So some of the events don't work in LINUX. Thanks in advance, Srpd _ m só local. rk-connector.aspx [[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.
Re: [R] Running R in Windows server
On Thu, Sep 10, 2009 at 3:07 PM, srpd TCLTKsrpd2...@hotmail.com wrote: Hi, I'm trying to set up a server which allows different users to use R simultaneously. Is it possible in Windows? I know that a LINUX Server is probably a better option, but I had already created a GUI with Tcl/tk in Windows. So some of the events don't work in LINUX. You need Windows Terminal Server 2008 (or 2003) plus the right client access licenses (CALs) depending on how you expect the machine to be used. A thousand dollars gets you a single server license plus 5 CALs. Then your 5 users connect to it from their Windows PCs using the Windows Remote Desktop Connection program. So your users will need Windows XP (or Vista, or 7) licenses as well, unless they have linux/mac desktops in which case they can use rdesktop to connect. Is it a thousand dollars worth of hassle to make your Tcl/Tk program OS-independent? Plus the time it takes to learn how to set up and admin a Windows TS 2008 box... 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.
Re: [R] Negative AIC
Corrado-5 wrote: Dear R list, I just obtained a negative AIC for two models (-221.7E+4 and -230.2E+4). Is that normal? It's not necessarily wrong. See http://emdbolker.wikidot.com/faq -- View this message in context: http://www.nabble.com/Negative-AIC-tp25383791p25384865.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] tranform a table?
One could probably use one of the apply family of functions (apply,
lapply, sapply), but having looked into it a bit, I think it's
simpler to use an explicit loop. I doubt you'll encounter a need for
greater efficiency, in the cpu time sense, unless your tables are
huge.
But the looping can be written more simply:
require(xtable)
df - data.frame(nm=letters[1:4], val1=1:4, val2=round(runif(4)))
for (i in seq(nrow(df))) {
print( xtable( t(df[i,])) , type='html', include.colnames=FALSE)
cat('br')
}
One of the other packages for writing html from R objects might have
a function that will automatically subset a dataframe in this
particular way, but it strikes me as somewhat unlikely.
-Don
At 6:10 AM -0700 9/10/09, bbimber wrote:
hello everyone,
i'm new to R, so i hope you dont mind a fairly basic R question. we're
using R to manipulate the results of SQL queries and create an HTML output.
I'm starting with a table that looks essentially like this:
NameField1 Field2
John value1 value2
Jane value3 value4
My table is stored as a dataframe. I'd like to efficiently produce an
output that iterates through each row, transposes it and outputs an HTML
table (one per row). like this:
Name: John
Field1: value1
Field2: value2
Name: Jane
Field1: value3
Field2: value4
I can accomplish this by looping through each row, then outputting that
row's table. This gets the job done, but it seems there must be a better
way. I'm going to need to do this sort of conversion a lot,
so the simpler the better. is there a better way to approach it than the
code below? is there a more general term for the sort of transformation i'm
trying to make that might help guide my searching?
i realize i need to look into better methods of outputting HTML tables (like
r2html).
here's the basic idea. 'labkey.data' is the data frame produced by my SQL
query:
D-labkey.data
H-colnames(D)
T-t(D)
L-length(D$id)
output -
for(i in 1:L) {
R-my.row - D[i, ]
R-t(R)
Len-length(R)
output - paste(output, table border=0)
for(j in 1:Len) {
output - paste(output,trtd, H[j],:/tdtd, R[j], /td)
}
output - paste(output, /tablep)
}
write(output, file=${htmlout:output})
Thanks for any help.
--
View this message in context:
http://*www.*nabble.com/tranform-a-table--tp25382806p25382806.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.
--
--
Don MacQueen
Environmental Protection Department
Lawrence Livermore National Laboratory
Livermore, CA, USA
925-423-1062
__
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] Negative AIC
My worry is: can I compare negative AIC with positive AIC? does the comparison still hold? On Thursday 10 September 2009 15:57:01 Ben Bolker wrote: Corrado-5 wrote: Dear R list, I just obtained a negative AIC for two models (-221.7E+4 and -230.2E+4). Is that normal? It's not necessarily wrong. See http://emdbolker.wikidot.com/faq -- Corrado Topi Global Climate Change Biodiversity Indicators Area 18,Department of Biology University of York, York, YO10 5YW, UK Phone: + 44 (0) 1904 328645, E-mail: ct...@york.ac.uk __ 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] Merge data frames but prefer values in one
Hello everyone, My problem is better explained with an example: x=data.frame(a=1:4,b=1:4,c=rnorm(4)) x a b c 1 1 1 -0.8821089 2 2 2 -0.7082583 3 3 3 -0.5948835 4 4 4 -1.8571443 y=data.frame(a=c(1,3),b=3,c=rnorm(2)) y a bc 1 1 3 -0.273155973 2 3 3 0.009517862 Now I want to merge x and y by columns a and b, hence creating a data.frame with all a:b combinations observed in x and y. That's easily done with merge: merge(x,y,by=c(a,b),all=T) a bc.x c.y 1 1 1 -0.8821089 NA 2 1 3 NA -0.273155973 3 2 2 -0.7082583 NA 4 3 3 -0.5948835 0.009517862 5 4 4 -1.8571443 NA But rather than two c columns I would want the merge to: - keep the value in x if there is no corresponding value in y - keep the value in y if there is no corresponding value in x - prefer the value in y when the a:b combination exists in both x and y So basically I want my result to look like: a b c 1 1 1 -0.8821089 2 1 3 -0.2731559 3 2 2 -0.7082583 4 3 3 0.0095178 5 4 4 -1.8571443 I can't find a combinations of options for merge that does this. Is there another fonction that would do that or do I have to resort to some post-processing after merge? It seems that it might be something like a right merge for data bases but I don't know this world at all. I would be happy to look into sqldf if that allows to do things like that. Thanks in advance. Sincerely, JiHO --- http://maururu.net __ 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] Insall package
Try downloading the rscproxy-.ZIP file on windows. Extension tar.gz
is used (mostly) on linux
or
install.packages('rscproxy')
-c
wesley mathew wrote:
Dear Sir
Subject: - *Install rscproxy_1.3-1.tar.gz *
I am working in Windows system. I was try to install *rscproxy* package
in two way.
*1.* install.packages (rscproxy_1.3-1.tar.gz), It shows the Warning:
unable to access index for repository
http://cran.pt.r-project.org/bin/windows/contrib/2.9
*2. * install.packages(C:/Program Files/R/rscproxy_1.3-1.tar.gz, repos =
NULL) It also show warning ( Error in gzfile(file, r) : cannot open the
connection In addition: Warning messages: 1: In unzip(zipname, exdir =
dest) : error 1 in extracting from zip file 2: In gzfile(file, r) :
cannot open compressed file 'rscproxy_1.3-1.tar.gz/DESCRIPTION', probable
reason 'No such file or directory' )
Could you please suggest, how to solve this problem,
__
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] Negative AIC
If all the models are fitted to the same data set, using the same modeling tools (you have to be careful e.g. comparing lmer models to glm models, because they use different additive constants), and everything seems to make sense (!!!), then yes. I would be a little surprised, and think that something was wrong, if you have some AIC values that are on the order of -20,000 (as below) and others that are +20,000 ... Ben Bolker Corrado wrote: My worry is: can I compare negative AIC with positive AIC? does the comparison still hold? On Thursday 10 September 2009 15:57:01 Ben Bolker wrote: Corrado-5 wrote: Dear R list, I just obtained a negative AIC for two models (-221.7E+4 and -230.2E+4). Is that normal? It's not necessarily wrong. See http://emdbolker.wikidot.com/faq -- Ben Bolker Associate professor, Biology Dep't, Univ. of Florida bol...@ufl.edu / www.zoology.ufl.edu/bolker GPG key: www.zoology.ufl.edu/bolker/benbolker-publickey.asc signature.asc Description: OpenPGP digital signature __ 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] Negative AIC
Hi, yes the AIC can be negative. To choose the model we use the criteria of lower AIC (-230.2E+4). Murilo Doi Corrado-5 wrote: Dear R list, I just obtained a negative AIC for two models (-221.7E+4 and -230.2E+4). Is that normal? Regards -- Corrado Topi Global Climate Change Biodiversity Indicators Area 18,Department of Biology University of York, York, YO10 5YW, UK Phone: + 44 (0) 1904 328645, E-mail: ct...@york.ac.uk __ 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. - Murilo Eiji Doi http://twitter.com/murilodoi http://pt.beezzer.com/rproject (help do R-project em português) -- View this message in context: http://www.nabble.com/Negative-AIC-tp25383791p25385341.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 do rotation for polygon?
Try representing the pentagon as a set of complex numbers. Translate them by adding a complex number and multiply by exp(1i*angle) to rotate them around the origin. E.g. to rotate them around their center of gravity, mean(p), do p-complex(real=c(4,5,7,8,6), imag=c(5,3,3,5,7)) plot(p, xlim=c(0,10), ylim=c(0,10), type=n) for(k in 0:10)polygon(border=k, lwd=k+1, (p-mean(p))*exp(k*1i/10*pi)+mean(p)) Bill Dunlap TIBCO Software Inc - Spotfire Division wdunlap tibco.com -Original Message- From: r-help-boun...@r-project.org [mailto:r-help-boun...@r-project.org] On Behalf Of Hemavathi Ramulu Sent: Thursday, September 10, 2009 1:44 AM To: Greg Snow Cc: r-help@r-project.org Subject: Re: [R] How to do rotation for polygon? Hi everyone, I still couldn't get the diagram as I mentioned before. I try Grey and Milton suggestion but it confusing. I hope anyone helped me. Thanks in advance. Regards, Hema. On Thu, Sep 3, 2009 at 11:39 PM, Greg Snow greg.s...@imail.org wrote: The my.symbols and ms.polygon functions in the TeachingDemos package may help. -- 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-boun...@r- project.org] On Behalf Of Hemavathi Ramulu Sent: Wednesday, September 02, 2009 11:05 PM To: r-help@r-project.org Subject: [R] How to do rotation for polygon? Hi everyone, I have coding for repeating pentagon as below: plot(0:11,type=n) for (i in 1:10 )polygon(rep(c(4,5,7,8,6)), i*c(.5,.3,.3,.5,.7), bor=2) which are increasing vertically. Now, I want to know how to rotate the pentagon, so that I will get pattern like flower. Basicly, repeating pentagon in circle. Thanks alot for helping me to solve this problem. -- Hemavathi [[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. -- Hemavathi Ramulu [[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.
Re: [R] Negative AIC
Enders (2004), Applied Econometric time series, Wiley, Exercise 10, page 102, sets out some of the variations of the AIC and SBC and contains a good definition. As these are all monotonic transformations of one another they lead to the same maximum (minimum). I say maximum/minimum because I have seen some persons who define the information criterion as the negative or other definitions. You may even find different definitions used in different functions in the same software. The only thing to do is to check the documentaion to see what definition is being used by each function in that software. Best Regards John Frain 2009/9/10 Corrado ct...@york.ac.uk: My worry is: can I compare negative AIC with positive AIC? does the comparison still hold? On Thursday 10 September 2009 15:57:01 Ben Bolker wrote: Corrado-5 wrote: Dear R list, I just obtained a negative AIC for two models (-221.7E+4 and -230.2E+4). Is that normal? It's not necessarily wrong. See http://emdbolker.wikidot.com/faq -- Corrado Topi Global Climate Change Biodiversity Indicators Area 18,Department of Biology University of York, York, YO10 5YW, UK Phone: + 44 (0) 1904 328645, E-mail: ct...@york.ac.uk __ 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. -- John C Frain Economics Department Trinity College Dublin Dublin 2 Ireland www.tcd.ie/Economics/staff/frainj/home.html mailto:fra...@tcd.ie mailto:fra...@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] tranform a table?
I think you could use reshape and ascii package here.
Create a file (code.Rnw) with this code :
John and Jane
=
=
df - data.frame(names = c(John, Jane), field1 = c(value1, value2),
field2 = c(value3, value4))
library(reshape)
cdf - cast(melt(df, id = names), variable ~ . | names)
@
results=ascii=
library(ascii)
ascii(cdf$Jane)
ascii(cdf$John)
@
Then from R, run :
Sweave(code.Rnw, RweaveAsciidoc)
Finally, use asciidoc http://www.methods.co.nz/asciidoc/ to convert the
new file code.txt into html :
asciidoc code.txt
David
On Thu, Sep 10, 2009 at 15:10, bbimber bim...@wisc.edu wrote:
hello everyone,
i'm new to R, so i hope you dont mind a fairly basic R question. we're
using R to manipulate the results of SQL queries and create an HTML output.
I'm starting with a table that looks essentially like this:
NameField1 Field2
John value1 value2
Jane value3 value4
My table is stored as a dataframe. I'd like to efficiently produce an
output that iterates through each row, transposes it and outputs an HTML
table (one per row). like this:
Name: John
Field1: value1
Field2: value2
Name: Jane
Field1: value3
Field2: value4
I can accomplish this by looping through each row, then outputting that
row's table. This gets the job done, but it seems there must be a better
way. I'm going to need to do this sort of conversion a lot,
so the simpler the better. is there a better way to approach it than the
code below? is there a more general term for the sort of transformation
i'm
trying to make that might help guide my searching?
i realize i need to look into better methods of outputting HTML tables
(like
r2html).
here's the basic idea. 'labkey.data' is the data frame produced by my SQL
query:
D-labkey.data
H-colnames(D)
T-t(D)
L-length(D$id)
output -
for(i in 1:L) {
R-my.row - D[i, ]
R-t(R)
Len-length(R)
output - paste(output, table border=0)
for(j in 1:Len) {
output - paste(output,trtd, H[j],:/tdtd, R[j], /td)
}
output - paste(output, /tablep)
}
write(output, file=${htmlout:output})
Thanks for any help.
--
View this message in context:
http://www.nabble.com/tranform-a-table--tp25382806p25382806.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] Merge data frames but prefer values in one
Try this:
xy - merge(x, y, by = c(a,b),all = TRUE)
xy$c - ifelse(rowSums(!is.na(.x - xy[, c('c.x', 'c.y')])) 1, .x[,1],
rowSums(.x, na.rm = TRUE))
xy
On Thu, Sep 10, 2009 at 12:21 PM, JiHO jo.li...@gmail.com wrote:
Hello everyone,
My problem is better explained with an example:
x=data.frame(a=1:4,b=1:4,c=rnorm(4))
x
a b c
1 1 1 -0.8821089
2 2 2 -0.7082583
3 3 3 -0.5948835
4 4 4 -1.8571443
y=data.frame(a=c(1,3),b=3,c=rnorm(2))
y
a bc
1 1 3 -0.273155973
2 3 3 0.009517862
Now I want to merge x and y by columns a and b, hence creating a data.frame
with all a:b combinations observed in x and y. That's easily done with
merge:
merge(x,y,by=c(a,b),all=T)
a bc.x c.y
1 1 1 -0.8821089 NA
2 1 3 NA -0.273155973
3 2 2 -0.7082583 NA
4 3 3 -0.5948835 0.009517862
5 4 4 -1.8571443 NA
But rather than two c columns I would want the merge to:
- keep the value in x if there is no corresponding value in y
- keep the value in y if there is no corresponding value in x
- prefer the value in y when the a:b combination exists in both x and y
So basically I want my result to look like:
a b c
1 1 1 -0.8821089
2 1 3 -0.2731559
3 2 2 -0.7082583
4 3 3 0.0095178
5 4 4 -1.8571443
I can't find a combinations of options for merge that does this. Is there
another fonction that would do that or do I have to resort to some
post-processing after merge? It seems that it might be something like a
right merge for data bases but I don't know this world at all. I would be
happy to look into sqldf if that allows to do things like that.
Thanks in advance. Sincerely,
JiHO
---
http://maururu.net
__
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.
--
Henrique Dallazuanna
Curitiba-Paraná-Brasil
25° 25' 40 S 49° 16' 22 O
[[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] Negative AIC
I think the problem is trying to compare different models trained don the same dataset. 1) If I compare for example gam (from gam package) with and without intercept, is that a valid comparison? For example: model with intercept has explained dev 24%, with AIC -2217146, model without intercept has explained dev 85.5% with AIC 217488.1 The results sound incredibly strange, but there is actually no difference in the model but the removal of the intercept :(. So which model is better at fitting the data 2) If I compare for example gam from gam package with let's say gam from mgcv (using tpsp), then I get two completely analogous AIC, but are they comparable? gam from mgcv package: -2195000 gam from gam package: -2217000 3) I would like to compare those AIC to the AIC obtained by running BRT on the same dataset. I was thinking of simply recalculating manually the AIC using the formula: AIC=2K+N*log(rss/N) where K is the number of parameters of the regression (i.e. the coefficient that are not zero, I would think) and N is the number of samples. What do you think? Would that be reasonable? Regards On Thursday 10 September 2009 16:39:32 Ben Bolker wrote: If all the models are fitted to the same data set, using the same modeling tools (you have to be careful e.g. comparing lmer models to glm models, because they use different additive constants), and everything seems to make sense (!!!), then yes. I would be a little surprised, and think that something was wrong, if you have some AIC values that are on the order of -20,000 (as below) and others that are +20,000 ... Ben Bolker Corrado wrote: My worry is: can I compare negative AIC with positive AIC? does the comparison still hold? On Thursday 10 September 2009 15:57:01 Ben Bolker wrote: Corrado-5 wrote: Dear R list, I just obtained a negative AIC for two models (-221.7E+4 and -230.2E+4). Is that normal? It's not necessarily wrong. See http://emdbolker.wikidot.com/faq -- Corrado Topi Global Climate Change Biodiversity Indicators Area 18,Department of Biology University of York, York, YO10 5YW, UK Phone: + 44 (0) 1904 328645, E-mail: ct...@york.ac.uk __ 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] AIC and goodness of prediction - was: Re: goodness of prediction using a model (lm, glm, gam, brt,
Dear Kingsford, I apologise for breaking the thread, but I thought there were some more people who would be interested. What you propose is what I am using at the moment: the sum of the squares of the residuals, plus variance / stdev. I am not really satisfied. I have also tried using R2, and it works well but some people go a bit wild eyed when they see a negative R2 (which is perfectly reasonable when you use R2 as a measure of goodness of fit on prediction on a dataset different from the training set). I was then wondering whether it would make sense to use AIC: the K in the formula will still be the number of parameters of the trained model, the sum of square residuals would be the (predicted - observed)^2, N would be the number of samples in the test dataset. I think it should work well. What do you / other R list members think? Regards On Thursday 03 September 2009 15:06:14 Kingsford Jones wrote: There are many ways to measure prediction quality, and what you choose depends on the data and your goals. A common measure for a quantitative response is mean squared error (i.e. 1/n * sum((observed - predicted)^2)) which incorporates bias and variance. Common terms for what you are looking for are test error and generalization error. hth, Kingsford On Wed, Sep 2, 2009 at 11:56 PM, Corradoct...@york.ac.uk wrote: Dear R-friends, How do you test the goodness of prediction of a model, when you predict on a set of data DIFFERENT from the training set? I explain myself: you train your model M (e.g. glm,gam,regression tree, brt) on a set of data A with a response variable Y. You then predict the value of that same response variable Y on a different set of data B (e.g. predict.glm, predict.gam and so on). Dataset A and dataset B are different in the sense that they contain the same variable, for example temperature, measured in different sites, or on a different interval (e.g. B is a subinterval of A for interpolation, or a different interval for extrapolation). If you have the measured values for Y on the new interval, i.e. B, how do you measure how good is the prediction, that is how well model fits the Y on B (that is, how well does it predict)? In other words: Y~T,data=A for training Y~T,data=B for predicting I have devised a couple of method based around 1) standard deviation 2) R^2, but I am unhappy with them. Regards -- Corrado Topi Global Climate Change Biodiversity Indicators Area 18,Department of Biology University of York, York, YO10 5YW, UK Phone: + 44 (0) 1904 328645, E-mail: ct...@york.ac.uk __ 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. -- Corrado Topi Global Climate Change Biodiversity Indicators Area 18,Department of Biology University of York, York, YO10 5YW, UK Phone: + 44 (0) 1904 328645, E-mail: ct...@york.ac.uk __ 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] Order of multiple plots
'Layout' is the way to go. You can define a layout as: LO - layout(matrix(c(1, 2, 3, 4), ncol=2)) In your case, you would probably want to use: layout(matrix(c(2, 1), ncol=2)) Then, the first plot will be drawn in space number 2, and then the second plot will be drawn in space number 1. Hope this helps. -Nandi On Sep 9, 11:49 pm, legen lege...@gmail.com wrote: Hello all, I have a problem and need your help. I am going to draw two plots in one row and two columns by using “par(mfrow=c(1,2))”, but I want to first draw the right plot and then draw the left plot. Does anybody can show me how to do it please? Thanks in advance. Legen -- View this message in context:http://www.nabble.com/Order-of-multiple-plots-tp25377235p25377235.html Sent from the R help mailing list archive at Nabble.com. __ r-h...@r-project.org 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] index of min elements in matrix
Hi, All, How can I get the indices of the minimum elements in a matrix without using a loop? For example, if the matrix is 4 5 2 2 8 9 5 2 3 Then I want to output (1,3), (2,1), (3,2). Thanks, Annie [[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] index of min elements in matrix
Try this: m - rbind(c(4,5,2), c(2,8,9), c(5,2,3)) cbind(1:NROW(m), apply(m, 1, which.min)) On Thu, Sep 10, 2009 at 3:34 PM, annie Zhang annie.zhang2...@gmail.comwrote: Hi, All, How can I get the indices of the minimum elements in a matrix without using a loop? For example, if the matrix is 4 5 2 2 8 9 5 2 3 Then I want to output (1,3), (2,1), (3,2). Thanks, Annie [[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. -- Henrique Dallazuanna Curitiba-Paraná-Brasil 25° 25' 40 S 49° 16' 22 O [[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] index of min elements in matrix
On Sep 10, 2009, at 1:34 PM, annie Zhang wrote: Hi, All, How can I get the indices of the minimum elements in a matrix without using a loop? For example, if the matrix is 4 5 2 2 8 9 5 2 3 Then I want to output (1,3), (2,1), (3,2). Thanks, Annie mat - matrix(c(4, 2, 5, 5, 8, 2, 2, 9, 3), 3) mat [,1] [,2] [,3] [1,]452 [2,]289 [3,]523 which(mat == min(mat), arr.ind = TRUE) row col [1,] 2 1 [2,] 3 2 [3,] 1 3 See ?which and take note of the arr.ind argument. HTH, Marc Schwartz __ 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] index of min elements in matrix
Thanks for all your help. Yes, it's very helpful. Annie On Thu, Sep 10, 2009 at 11:42 AM, Marc Schwartz marc_schwa...@me.comwrote: On Sep 10, 2009, at 1:34 PM, annie Zhang wrote: Hi, All, How can I get the indices of the minimum elements in a matrix without using a loop? For example, if the matrix is 4 5 2 2 8 9 5 2 3 Then I want to output (1,3), (2,1), (3,2). Thanks, Annie mat - matrix(c(4, 2, 5, 5, 8, 2, 2, 9, 3), 3) mat [,1] [,2] [,3] [1,]452 [2,]289 [3,]523 which(mat == min(mat), arr.ind = TRUE) row col [1,] 2 1 [2,] 3 2 [3,] 1 3 See ?which and take note of the arr.ind argument. HTH, Marc Schwartz [[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] Order a vector and move to new vector
Try the following:
Data - read.table('Sample.txt', header=T)
Data
IDUNAV
1 1694 999.89
2 1696 999.90
3 1694 999.87
4 1696 999.88
5 1694 999.84
6 1696 999.86
7 1694 999.82
8 1696 999.84
9 1694 999.79
10 1696 999.82
11 1694 999.71
12 1696 999.75
13 1694 999.69
14 1696 999.73
15 1694 999.66
16 1696 999.71
17 1694 999.64
18 1696 999.69
19 1694 999.61
20 1696 999.67
21 1694 999.54
22 1696 999.70
23 1694 999.51
24 1696 1002.24
25 1694 999.48
26 1696 1012.14
27 1694 999.46
28 1696 1003.38
29 1694 999.43
Then type:
Data_Ordered - Data[order(Data$ID),]
Data_Ordered
IDUNAV
1 1694 999.89
3 1694 999.87
5 1694 999.84
7 1694 999.82
9 1694 999.79
11 1694 999.71
13 1694 999.69
15 1694 999.66
17 1694 999.64
19 1694 999.61
21 1694 999.54
23 1694 999.51
25 1694 999.48
27 1694 999.46
29 1694 999.43
2 1696 999.90
4 1696 999.88
6 1696 999.86
8 1696 999.84
10 1696 999.82
12 1696 999.75
14 1696 999.73
16 1696 999.71
18 1696 999.69
20 1696 999.67
22 1696 999.70
24 1696 1002.24
26 1696 1012.14
28 1696 1003.38
Not sure if this is what you were looking for.
-Nandi
On Sep 10, 4:06 am, Conrad Addo conrad.a...@gmail.com wrote:
I currently have a data frame with a Fund ID and NAV value. Is it possible
to order the data frame and move to separate columns in a new data frame or
matrix in R without using a for loop? I suppose I'd like to use a built in
function to make it faster because I will have around 60,000 entries to sort
and my current program takes too long to do this. I know how to use order,
but is there a way to separate the result and place into new vectors of a
matrix or data frame?
Thanks
Conrad
Here are my vectors which I import from a csv file:
ID UNAV #1694 999.89 #1696 999.9 #1694 999.87 #1696 999.88 #1694
999.84 #1696 999.86 #1694 999.82 #1696 999.84 #1694 999.79 #1696 999.82
#1694 999.71 #1696 999.75 #1694 999.69 #1696 999.73 #1694 999.66 #1696
999.71 #1694 999.64 #1696 999.69 #1694 999.61 #1696 999.67 #1694 999.54
#1696 999.7 #1694 999.51 #1696 1002.24 #1694 999.48 #1696 1012.14 #1694
999.46 #1696 1003.38 #1694 999.43
[[alternative HTML version deleted]]
__
r-h...@r-project.org 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] function to solve equations
Hi,
I am trying to solve this equation prob = exp(-3.33 + 0.0102*x)/(1+exp(-3.33 +
0.0102*x)). I want to write a function where I call the function and enter the
'prob' value and the output should be the 'x'. Im not sure how to write this. I
have a basic structure but im not sure if its correct.
calc - function(prob){
prob - exp(-3.33+0.0102*x)/(1+exp(-3.33 + 0.0102*x))
solve(prob)
x
}
Thanks
Yash Gandhi
__
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] ggplot2: mixing colour and linetype in geom_lin e
Hi Benoit,
I'm not a specialist of ggplot2, but I will try to help.
You may obtain more --interesting-- answers on the ggplot2
mailing list. This said, let's go.
To solve your problem, I would suggest to
1. change the form of the data frame (using the reshape library)
in order to have one variable for Temp, one for the different Xs,
and one for their y values.
2. add a new variable for the different molecules.
3. then plot
# change the format of the data frame
library(reshape)
mdat - melt(THT_N2_ATGMS, id=Temp)
# add the molecule variable
mdat$mol - 'other'
mdat$mol[mdat$variable %in% c('X22','X44')] - 'CO2'
mdat$mol[mdat$variable %in% c('X43','X45')] - 'AA'
#plot
library(ggplot2)
p - ggplot(data=mdat, aes(x=Temp, y=value, colour=mol,
linetype=variable)) +
geom_line()
p
that's it. HTH
Matthieu
__
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] function to solve equations
You don't need an equation solver. This is basic algebra.
The solution is:
X = (log(prob) - log(1 - prob) + 3.33) / 0.0102
Ravi.
---
Ravi Varadhan, Ph.D.
Assistant Professor, The Center on Aging and Health
Division of Geriatric Medicine and Gerontology
Johns Hopkins University
Ph: (410) 502-2619
Fax: (410) 614-9625
Email: rvarad...@jhmi.edu
Webpage:
http://www.jhsph.edu/agingandhealth/People/Faculty_personal_pages/Varadhan.h
tml
-Original Message-
From: r-help-boun...@r-project.org [mailto:r-help-boun...@r-project.org] On
Behalf Of Yash Gandhi
Sent: Thursday, September 10, 2009 3:35 PM
To: r-help@r-project.org
Subject: [R] function to solve equations
Hi,
I am trying to solve this equation prob = exp(-3.33 + 0.0102*x)/(1+exp(-3.33
+ 0.0102*x)). I want to write a function where I call the function and enter
the 'prob' value and the output should be the 'x'. Im not sure how to write
this. I have a basic structure but im not sure if its correct.
calc - function(prob){
prob - exp(-3.33+0.0102*x)/(1+exp(-3.33 + 0.0102*x))
solve(prob)
x
}
Thanks
Yash Gandhi
__
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] R 2.9.2 memory max - object vector size
Me: Win XP 4 gig ram R 2.9.2 library(foreign) # to read/write SPSS files library(doBy) # for summaryBy library(RODBC) setwd(C:\\Documents and Settings\\00909BR) gc() memory.limit(size=4000) ## PROBLEM: I have memory limit problems. R and otherwise. My dataframes for merging or subsetting are about 300k to 900k records. I've had errors such as vector size too large. gc() was done.reset workspace, etc. This fails: y$pickseq-with(y,ave(as.numeric(as.Date(timestamp)),id,FUN=seq)) Any clues? Is this 2.9.2? Skipping forward, should I download version R 2.8 or less? Thanks! Steve __ 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] Linux R version: best?
For my Redhat 5.2 Linux box, which version of R would be most stable? I am doing forecasting, statistics, etc. Thanks! Steve __ 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] Linux R version: best?
Hi, On Sep 10, 2009, at 4:47 PM, S. Few wrote: For my Redhat 5.2 Linux box, which version of R would be most stable? I am doing forecasting, statistics, etc. I believe the conventional wisdom is to always download the latest version ... and also, typically, update your current version to the latest version when it's released. -steve -- Steve Lianoglou Graduate Student: Computational Systems Biology | Memorial Sloan-Kettering Cancer Center | Weill Medical College of Cornell University Contact Info: http://cbio.mskcc.org/~lianos/contact __ 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] Linux R version: best?
On Sep 10, 2009, at 4:33 PM, Steve Lianoglou wrote: Hi, On Sep 10, 2009, at 4:47 PM, S. Few wrote: For my Redhat 5.2 Linux box, which version of R would be most stable? I am doing forecasting, statistics, etc. I believe the conventional wisdom is to always download the latest version ... and also, typically, update your current version to the latest version when it's released. I would just add that the current version available in a binary RPM for RHEL 5.x on CRAN is 2.9.2 and the current binary RPM available via the EPEL (https://fedoraproject.org/wiki/EPEL) is 2.9.1. I would expect to see 2.9.2 on the EPEL soon. Unlike server operating systems such as RHEL, which have a long multi- year support window, most applications do not. R's life cycle is such that support (bug fixes, patches, etc.) for released versions is essentially limited to the current release. So there are strong motivations, as Steve noted, to stay up to date as new R versions are released. HTH, Marc Schwartz P.S. to Steve L, I just noted your e-mail address...LOL __ 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] numerical integration
Hi r-users,
Can I do a numerical integration in R to solve for F(z)- integral_0^z {f(t) dt}
= 0 where F(z) is the CDF and f(t) is the pdf? What package can I use?
Thank you so much for any help given.
[[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] numerical integration
My goodness! Did you try ?integrate ?
Bert Gunter
Genentech Nonclinical Biostatistics
-Original Message-
From: r-help-boun...@r-project.org [mailto:r-help-boun...@r-project.org] On
Behalf Of Roslina Zakaria
Sent: Thursday, September 10, 2009 3:36 PM
To: r-help@r-project.org
Subject: [R] numerical integration
Hi r-users,
Can I do a numerical integration in R to solve for F(z)- integral_0^z {f(t)
dt} = 0 where F(z) is the CDF and f(t) is the pdf? What package can I use?
Thank you so much for any help given.
[[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] Complex binning?
Hi, I need to do some binning which to date I've done just writing subset commands. I'm now wondering if there are any good packages that have some good pre-designed functions for multi-variable binning using say 4 or 5 variables, sometimes binning on 3 or more levels of each variable, and then supporting some sort of reporting mechanism to tell me how many data points fell into each bin? I'm getting sort of tired of writing and debugging long logic equations! :-) 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.
Re: [R] Read.csv in R with dynamic file (1st) argument
That will not work (or at least doesn't work for me.
This does work:
fnam-'thefilename.csv' #or build the name however you like
fpath - 'macintoshhd/users/me/myfolder/ # or whatever you need
read.csv(eval(paste(fpath,fnam,sep=)) #worked for me
Carl
---
Try this:
read.csv(sprintf(D://R//Data//%04d//%04d.csv, x, x), header = TRUE)
On Wed, Sep 9, 2009 at 9:32 PM, Steven Kang stochastick...@gmail.comwrote:
Dear R users,
I have numerous data sets (csv files) saved in the folder which has the
same
name as individual data.
(i.e data x1 saved in x1 folder, data x2 in x2 folder etc)
I would like to read in the desired data set name using 'scan'
function and
assign this inputted value to an object so that it can be used in the
'read.csv' function.
For example,
x - scan()
1: 0708
2:
Read 1 item
dat - read.csv(D://R//Data//x//x.csv, head=TRUE, sep = ,)
Error in file(file, r) : cannot open the connection
In addition: Warning message:
In file(file, r) :
cannot open file ('D://R//Data//x//x.csv': No such file or directory
--
Henrique Dallazuanna
Curitiba-Paraná-Brasil
25° 25' 40 S 49° 16' 22 O
__
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] sppolot: fill below minimum legend value
In the plot below, there are some grid cells that have values below 10, which is the lowest cut value I have specified. Is there a way, without adjusting the number of cuts, to tell R to fill in those cells with the lowest possible color (in this case greeen)? There is a white hole in the image about a quarter of the way in from the left side, this is what I would like to correct. Thanks...Eric The code: pts-list(sp.points,K.dat,pch=3,col=black) cuts-c(10,20,30,40,50,60,70,80,90,100,200,300,400,500,600,700,800,900,1000) spplot(lzm.krige.dir[var1.pred],at=cuts,colorkey=list(at=log10(cuts),at=log10(cuts),labels=as.character(cuts)),scales=list(draw=TRUE), xlab=Easting,ylab=Northing,key.space=right,cex=1.1,col.regions=terrain.colors(30),main=Hydraulic Conductivity of Layer 2,sp.layout=list(pts)) The image: http://www.nabble.com/file/p25392472/Image3.jpeg -- View this message in context: http://www.nabble.com/sppolot%3A-fill-below-minimum-legend-value-tp25392472p25392472.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] Complex binning?
packages: plyr reshape (the package, not the base R function) There may well be others... Bert Gunter Genentech Nonclinical Biostatistics -Original Message- From: r-help-boun...@r-project.org [mailto:r-help-boun...@r-project.org] On Behalf Of Mark Knecht Sent: Thursday, September 10, 2009 3:55 PM To: r-help Subject: [R] Complex binning? Hi, I need to do some binning which to date I've done just writing subset commands. I'm now wondering if there are any good packages that have some good pre-designed functions for multi-variable binning using say 4 or 5 variables, sometimes binning on 3 or more levels of each variable, and then supporting some sort of reporting mechanism to tell me how many data points fell into each bin? I'm getting sort of tired of writing and debugging long logic equations! :-) 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.
Re: [R] R 2.9.2 memory max - object vector size
-Original Message-
From: r-help-boun...@r-project.org
[mailto:r-help-boun...@r-project.org] On Behalf Of S. Few
Sent: Thursday, September 10, 2009 1:46 PM
To: r-help@r-project.org
Subject: [R] R 2.9.2 memory max - object vector size
Me:
Win XP
4 gig ram
R 2.9.2
library(foreign) # to read/write SPSS files
library(doBy) # for summaryBy
library(RODBC)
setwd(C:\\Documents and Settings\\00909BR)
gc()
memory.limit(size=4000)
## PROBLEM:
I have memory limit problems. R and otherwise. My dataframes for
merging or subsetting are about 300k to 900k records.
I've had errors such as vector size too large. gc() was done.reset
workspace, etc.
This fails:
y$pickseq-with(y,ave(as.numeric(as.Date(timestamp)),id,FUN=seq))
If any values in id are singletons then the call to
seq(timestamp[id==singleton])
returns a vector whose length is timestamp[id==singleton] (not the
length
of that, the value of that). as.numeric(as.Date(2009-09-10)) is 14497
so you
might have a lot of 14497-long vectors being created (and thrown away,
unused
except for their initial value). Using seq_along instead of seq would
take
care of that potential problem. E.g.,
d1-data.frame(x=c(2,3,5e9,4,5),id=c(A,B,B,B,A))
d2-data.frame(x=c(2,3,5e9,4,5),id=c(A,B,C,B,A))
# d1$id has no singletons, d2$id does where d2$x is huge
with(d1, ave(x,id,FUN=seq))
[1] 1 1 2 3 2
with(d2, ave(x,id,FUN=seq))
Error in 1L:from : result would be too long a vector
with(d2, ave(x,id,FUN=seq_along))
[1] 1 1 1 2 2
If your intent is to create a vector of within-group sequence numbers
then there are more efficient ways to do it. E.g., with the following
functions
withinGroupSeq - function(x){
x - as.factor(x)
retval - integer(length(x))
retval[order(as.integer(x))] - Sequence(table(x))
retval
}
# Sequence is like base::sequence but should use less memory
# by avoiding the list that sequence's lapply call makes.
Sequence - function(nvec) {
seq_len(sum(nvec)) - rep(cumsum(c(0L,nvec[-length(nvec)])), nvec)
}
you can get the same result as ave(FUN=seq_along) in less time and,
I suspect, less memory
withinGroupSeq(d1$id)
[1] 1 1 2 3 2
withinGroupSeq(d2$id)
[1] 1 1 1 2 2
Base R may have a function for that already.
Bill Dunlap
TIBCO Software Inc - Spotfire Division
wdunlap tibco.com
Any clues?
Is this 2.9.2?
Skipping forward, should I download version R 2.8 or less?
Thanks!
Steve
__
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] Read.csv in R with dynamic file (1st) argument
Oh strange, as it worked for me..
Thanks for providing alternative method in solving the problem!
On Fri, Sep 11, 2009 at 9:01 AM, Carl Witthoft c...@witthoft.com wrote:
That will not work (or at least doesn't work for me.
This does work:
fnam-'thefilename.csv' #or build the name however you like
fpath - 'macintoshhd/users/me/myfolder/ # or whatever you need
read.csv(eval(paste(fpath,fnam,sep=)) #worked for me
Carl
---
Try this:
read.csv(sprintf(D://R//Data//%04d//%04d.csv, x, x), header = TRUE)
On Wed, Sep 9, 2009 at 9:32 PM, Steven Kang stochastick...@gmail.com
wrote:
Dear R users,
I have numerous data sets (csv files) saved in the folder which has the
same
name as individual data.
(i.e data x1 saved in x1 folder, data x2 in x2 folder etc)
I would like to read in the desired data set name using 'scan' function
and
assign this inputted value to an object so that it can be used in the
'read.csv' function.
For example,
x - scan()
1: 0708
2:
Read 1 item
dat - read.csv(D://R//Data//x//x.csv, head=TRUE, sep = ,)
Error in file(file, r) : cannot open the connection
In addition: Warning message:
In file(file, r) :
cannot open file ('D://R//Data//x//x.csv': No such file or directory
--
Henrique Dallazuanna
Curitiba-Paraná-Brasil
25° 25' 40 S 49° 16' 22 O
__
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.htmlhttp://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] Complex binning?
Thanks Bert, I've used reshape a bit but hadn't considered it for this need. plyr is new to me so I'll check it out. I think the hard part in my case is designing the bins. I have some continuous signals for which I don't know how many bins I want to break each into. I'd like to be able to sort of on the fly chose 4, 5, 6 or 7 different values and get bins between each consecutive value, and also above and below. I'll look at the plyr docs to see if it can do that. Thanks again, Mark On Thu, Sep 10, 2009 at 4:22 PM, Bert Gunter gunter.ber...@gene.com wrote: packages: plyr reshape (the package, not the base R function) There may well be others... Bert Gunter Genentech Nonclinical Biostatistics -Original Message- From: r-help-boun...@r-project.org [mailto:r-help-boun...@r-project.org] On Behalf Of Mark Knecht Sent: Thursday, September 10, 2009 3:55 PM To: r-help Subject: [R] Complex binning? Hi, I need to do some binning which to date I've done just writing subset commands. I'm now wondering if there are any good packages that have some good pre-designed functions for multi-variable binning using say 4 or 5 variables, sometimes binning on 3 or more levels of each variable, and then supporting some sort of reporting mechanism to tell me how many data points fell into each bin? I'm getting sort of tired of writing and debugging long logic equations! :-) 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] memory limit problem
Hi,
I have Win XP 32, 4 gig DDR2 and R 2.9.2.
I have memory limit problems.
memory.limit(4090)
[1] 4090
memory.limit()
[1] 4090
a-trans.matrix.f(7) # made big matrix of integer 16384*16384
Error: cannot allocate vector of size 512.0 Mb
I not have other objects in R memory.
what I do?
trans.matrix.f - function(x){
tr.mat - matrix(c(0,1,1,0),2)
for(i in 2:(2*x))
tr.mat - rbind(cbind(tr.mat ,tr.mat+1),
cbind(tr.mat+1,tr.mat ))
return(tr.mat)
}
Thanks!
Oleg.
[[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] memory limit problem
Hi, On Thu, Sep 10, 2009 at 8:24 PM, oleg portnoyoleg.portno...@gmail.com wrote: Hi, I have Win XP 32, 4 gig DDR2 and R 2.9.2. I have memory limit problems. memory.limit(4090) [1] 4090 memory.limit() [1] 4090 a-trans.matrix.f(7) # made big matrix of integer 16384*16384 Error: cannot allocate vector of size 512.0 Mb I not have other objects in R memory. what I do? Get a 64 bit system and ditch windows? http://thread.gmane.org/gmane.comp.lang.r.general/64637 Or maybe the bigmemory package can help? http://cran.r-project.org/web/packages/bigmemory/ -steve -- Steve Lianoglou Graduate Student: Computational Systems Biology | Memorial Sloan-Kettering Cancer Center | Weill Medical College of Cornell University Contact Info: http://cbio.mskcc.org/~lianos/contact __ 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] Exporting the formula for a LOESS fit
I'm at my wit's end, and have searched all of my sources. I need to generate a relatively large number of individual LOESS fits each month of data (I have about 16 months of data). Fitting the polynomial is not my problem, figuring out what the formula that describes that polynomial is. apologies in advance if this is so simple, but I need a hand here. Thanks. -- View this message in context: http://www.nabble.com/Exporting-the-formula-for-a-LOESS-fit-tp25391878p25391878.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] Bootstrap simulation
Hi listers, I would like a suggestion. I am working on a bootstrap simulation which I am calculation the confidence intervals to obtain the coverage probability. I am applying 3 kind of confidence intervals and 3 coverage probabilities (2 sided, left 5% and left 95%). I programmed a function for that, but my function is getting to long, because I am calculating many statistics (mean, median, quantile...). So, for each statistic I have 9 comands to obtain my results, so for 3 statistics I will get 27 comands... I am searching for a optimal way to reduce the quantity of formulas... Is that clear... Any suggestions... BThanks in advance, Marcio -- View this message in context: http://www.nabble.com/Bootstrap-simulation-tp25390390p25390390.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] Exporting the formula for a LOESS fit
Tena koe Loess uses local fitting: Fitting is done locally. That is, for the fit at point x, the fit is made using points in a neighbourhood of x, weighted by their distance from x (from the help). That is, there is no single formula to describe the fit. HTH Peter Alspach -Original Message- From: r-help-boun...@r-project.org [mailto:r-help-boun...@r-project.org] On Behalf Of jrflanders Sent: Friday, 11 September 2009 10:11 a.m. To: r-help@r-project.org Subject: [R] Exporting the formula for a LOESS fit I'm at my wit's end, and have searched all of my sources. I need to generate a relatively large number of individual LOESS fits each month of data (I have about 16 months of data). Fitting the polynomial is not my problem, figuring out what the formula that describes that polynomial is. apologies in advance if this is so simple, but I need a hand here. Thanks. -- View this message in context: http://www.nabble.com/Exporting-the-formula-for-a-LOESS-fit-tp 25391878p25391878.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] Read.csv in R with dynamic file (1st) argument
Alternatives to sprintf() include formatC() or
prettyNum(), which would have to be used in
combination with paste().
In Carl's solution, the file.path() function
should be considered, since it automatically uses
the correct path separators for the OS.
Furthermore, eval() is not necessary.
So, for example,
x - formatC(scan(),width=4,flag='0')
1: 23
2:
Read 1 item
x
[1] 0023
root.dir - 'D:\R\Data'
read.csv(
file.path(root.dir,x,paste(x,'.csv',sep=''))) ##
those are all single quotes
This isn't necessarily better than the sprintf()
version, just different, and shows some
additional useful functions(). This way of using
formatC() requires that the user input only
numbers:
x - formatC(scan(),width=4,flag='0')
1: jk
1:
Error in scan(file, what, nmax, sep, dec, quote, skip, nlines, na.strings, :
scan() expected 'a real', got 'jk'
I don't know what sprintf() would do with such input.
-Don
At 7:01 PM -0400 9/10/09, Carl Witthoft wrote:
That will not work (or at least doesn't work for me.
This does work:
fnam-'thefilename.csv' #or build the name however you like
fpath - 'macintoshhd/users/me/myfolder/ # or whatever you need
read.csv(eval(paste(fpath,fnam,sep=)) #worked for me
Carl
---
Try this:
read.csv(sprintf(D://R//Data//%04d//%04d.csv, x, x), header = TRUE)
On Wed, Sep 9, 2009 at 9:32 PM, Steven Kang stochastick...@gmail.comwrote:
Dear R users,
I have numerous data sets (csv files) saved in the folder which has the
same
name as individual data.
(i.e data x1 saved in x1 folder, data x2 in x2 folder etc)
I would like to read in the desired data set name using 'scan' function and
assign this inputted value to an object so that it can be used in the
'read.csv' function.
For example,
x - scan()
1: 0708
2:
Read 1 item
dat - read.csv(D://R//Data//x//x.csv, head=TRUE, sep = ,)
Error in file(file, r) : cannot open the connection
In addition: Warning message:
In file(file, r) :
cannot open file ('D://R//Data//x//x.csv': No such file or directory
--
Henrique Dallazuanna
Curitiba-Paraná-Brasil
25° 25' 40 S 49° 16' 22 O
__
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.
--
-
Don MacQueen
Lawrence Livermore National Laboratory
Livermore, CA, USA
925-423-1062
m...@llnl.gov
__
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] fitting stated preference econometric data using multinomial logit in R
Hello, Does anyone know anything about using R to fit stated preference econometric data using multinomial logit? I am not sure that standard VGLM/VGAM can handle this, or if it does, how. This data is different than more typical revealed preference data in that it is recorded as in the following excerpt, for a 3 attribute problem with 3 levels in which the respondent chooses (CHOICE) 1 of 4 alternatives: ID CHOICE DEAD10 DEAD5 LIVE153 LIVE459 TAX 15 0 0 0 0 1 60 15 0 0 0 0 0 400 15 1 0 1 0 0 1600 15 0 1 0 0 1 60 29 0 0 0 1 0 1600 29 0 0 0 1 0 80 29 0 0 0 1 0 120 29 1 1 0 0 1 80 etc. thanks in advance... richard anderson -- Richard M. Anderson, Assistant Professor Duke University, Nicholas School of the Environment A321 LSRC Box 90328 Durham, NC 27708 919.613.8130 (v), 919.684.8741 (f) richard.ander...@duke.edu __ 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] eps file with embedded font
Hi My suggested code had dropped the ... format=epswrite ... and if you put that back, then the /setpagesize command is removed. Does that improve things in your test cases? Paul Ted Harding wrote: Thanks, Paul. In fact I had been hoping to lure you to the surface, from the 12740-km ocean depths which you inhabit, during our hours of darkness! Your suggested modification of the options in the embedFonts command indeed produces an EPS file which displays without clipping. However, when these files are imported into a PS document using 'groff', the blanking problem described at the end of my included orifginal posting (below) persisted. So I posted a summary of the problem to the 'groff' mailing-list. This can be found in the thread [Groff] EPS importing problem, Ted Harding, 2009/09/09 at http://lists.gnu.org/archive/html/groff/2009-09/threads.html There is a reply by Tadziu Hoffmann: Attached are two EPS files: test1.eps test1-EMB2.eps [snip] File test1-EMB2.eps[*] contains a call to setpagedevice (through setpagesize), which is a bin no-no for EPS files. Does the problem still occur If you delete the line that says 720 360 /letter setpagesize? [*] which was generated by your modified embedFonts() and, as my reply confirms, commenting-out that line resolved the problem (though there a minor issue that the BoundingBox is not what is really wanted, but that can be resolved by editing the EPS file). I'm not sure where the insertion of the call to setpagedevice arose from, but I think it is down to 'gs'. There was a much longer private reply from a Robert Herrmann, which I shall send you privately since it may be of interest, along with the PS filoe I got after implementing Tadziu Hoffmann. Meanwhile, those who are interested by the issues arising in this thread, raised by Simone Gabbriellini, may find the above useful. Ted. On 08-Sep-09 23:51:27, Paul Murrell wrote: Hi Thanks for the further analysis on this Ted. I think the problem is that, with such a wide plot, you are running into the default paper size. If you look at the EPS produced by ghostscript, you will see a line like this ... 612 792 /letter setpagesize ... and notice that the value 612 corresponds to the unexpected right hand clipping margin. So a possible solution is to specify a paper size or, more generally, a device size, that is larger (especially wider) than the original plot. Here's an example for this particular case ... embedFonts(file=test1.eps, outfile=test1-EMB.eps, options=-dDEVICEWIDTHPOINTS=720 -dDEVICEHEIGHTPOINTS=360) Now, rather than clipping the output to the default paper size, the result is clipped to the edges of the plot. Hope that helps. Paul p.s. Another useful tip that helps in these situations is to get ghostscript to just calculate a bounding box for your plot. For example ... gs -dNOPAUSE -dBATCH -q -sDEVICE=bbox test1.eps %%BoundingBox: 4 18 691 336 %%HiResBoundingBox: 4.968000 18.71 690.134885 335.214341 ... which shows that ghostscript can produce the right bounding box, if it ignores the default paper size for output. Ted Harding wrote: I am going back to Simone's original query (though this will split the thread) because subsequent replies did not include his original. Some comments interspersed below; the main response at the end. I have had some private correspondence with Simone, who sent me two of his files that exhibit the problem, and this has enabled me to form an idea of where the trouble may lie. It would seem that either there is something seriously wrong with the function embedFonts(), or with ghostscript when executing the command generated by embedFonts(), or with both. I shal descibe the results of my esperminets, in the hope that some expert in embedFonts(), or in ghostscript, or in both, can make a useful suggestion. On 04-Sep-09 14:01:44, Simone Gabbriellini wrote: Dear list, I am trying to make eps file with embedded font. I use: postscript(ranking-exp-all.eps, horizontal=TRUE, onefile=FALSE, paper=special, height=8, width=12, family=Helvetica) # plot stuff dev.off() since R does not embed font, I then use: embedFonts(file=indegdistr.eps, outfile=indegdistrEMB.eps, fontpaths=System/Library/Fonts) I think Simone intended to use a different filename here, probably embedFonts(file=ranking-exp-all.eps, outfile=ranking-exp-all-EMB.eps, fontpaths=System/Library/Fonts) in line with his previous command above. This is not important here. the problem is that the second file, with font embedded, is cutted near the end, and the very last part of the plots and the border are off the page... In fact the bottom of the graphic is slightly clipped when viewed in ghostview, and the righthand side is severely clipped. I use R 2.8.1 on a Mac OSX any help more than welcome, regards, Simone Ths problem Simone encountered can be reproduced in a
Re: [R] Best R text editors?
Martin Maechler maech...@stat.math.ethz.ch [Wed, Sep 02, 2009 at 09:17:42AM CEST]: PaCo == p connolly p_conno...@slingshot.co.nz on Wed, 02 Sep 2009 12:19:31 +1200 writes: PaCo On Mon, 31-Aug-2009 at 08:25PM +1000, Jim Lemon wrote: PaCo [...] [...] PaCo | Emacs still PaCo | has that annoying trait of being determinedly incompatible with anything PaCo | else, even if the conventions are quite sensible. A lot of the keystrokes are the same as when you are using the bash. [...] well, actually, since Emacs 23, in its 'Options' Menu there's now a check-box entry C-x/C-c/C-v Cut and Paste (CUA) ((which still is off by default ;-)) and in previous versions, you could always do M-x cua-mode for the same effect. Talk about a well-hidden function mostly directed at beginners ... -- 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.
[R] Accumulating results from for loop in a list/array
Dear R users,
I would like to accumulate objects generated from 'for' loop to a list or
array.
To illustrate the problem, arbitrary data set and script is shown below,
x - data.frame(a = c(rep(n,3),rep(y,2),rep(n,3),rep(y,2)), b =
c(rep(y,2),rep(n,4),rep(y,3),n), c = c(rep(n,7),rep(y,3)), d =
c(y, rep(n,4), rep(y,2), rep(n,3)))
for (i in 1:(dim(x)[2])) {
assign(paste(ind, i, sep = ), which(x[ , i] == y))
accum - c(ind1, ind2, ind3, ind4)
}
ind1
[1] 4 5 9 10
ind2
[1] 1 2 7 8 9
ind3
[1] 8 9 10
ind4
[1] 1 6 7
accum
[1] 4 5 9 10 1 2 7 8 9 8 9 10 1 6 7
Are there any alternative method where the highlighted statement above can
be represented without typing individual objects manually? (as it can be
very tedious with large number of objects; i.e ind1, ind2, ., ind100)
Also, is there any way to extract individual objects ('ind1' etc) from
'accum'?
accum[1:length(ind1)]
[1] 4 5 9 10
gives 'ind1', but this may become messy for other objects (like 'ind10')
Highly appreciate for sharing your expertise in solving this problem.
[[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.
