Re: [R] multcomp
?glht says with 'print', 'summary', 'confint', 'coef' and 'vcov' methods being available. try: example(glht) summary(glht(amod, linfct = mcp(tension = Tukey))) confint(glht(amod, linfct = mcp(tension = Tukey))) On 3/19/07, Nair, Murlidharan T [EMAIL PROTECTED] wrote: I used the multcomp package sometime back for doing multiple comparisons. I see that it has been updated and the methods like simint are no longer supported. When I run the program it prompts to me to use glht. How do I get the lower and upper conf int and the pValues using glht? Does anyone have an example? Thanks ../Murli [[alternative HTML version deleted]] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] Complex superscript plot text
try: mtext(substitute(R^2 * : * GoodnessOfFits[i],list(i=graphNumber))) HTH. On 3/16/07, Bob Farmer [EMAIL PROTECTED] wrote: Hi all: I would like to create a line of plot margin text (using mtext() ) that features both a superscript and a subset of an object. However, I cannot seem to do both things at once, nor have I found a way to paste the two results together. (I pull the object subset because this is part of a for-next loop to make multiple graphs) This example doesn't give me what I want from mtext(): GoodnessOfFits-c(1, 0.75) graphNumber-1 #first loop of the for-next loop (not shown) x-seq(-10, 10, 1) y-(x^2) plot(x,y) lines(x, predict(lm(y~I(x^2 mtext(text= expression(R^2 * : * GoodnessOfFits[graphNumber])) I recognize that in this example, I could extract the R-squared value from the model in each loop, however this does not apply to my more complicated real scenario. Any suggestions? Thanks. --Bob Farmer __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] help on sigmoid curve fitting
you can use nls: see ?nls and its example. HTH. On 3/16/07, Hufkens Koen [EMAIL PROTECTED] wrote: Hi list, I was wondering how I should go about fitting a sigmoid curve to a dataset. More specifically how I estimate parameters a and b in the following equation: 1 / 1+exp(-(x-a)*b) with b the steepness of the sigmoid curve and a the shift of the center of the sigmoid curve relative to the center of your dataframe. The fit is in function of x, the location within the input vector and y, an ecological value. So I would like to estimate parameters a and b and a goodness of fit/ F-value of some kind. Any suggestions? Kind regards, Koen -- Checked by AVG Free Edition. 11:27 [[alternative HTML version deleted]] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] cex in xlab, ylab and zlab of persp
Internally, labs in persp are drawn as when you use text function. So you cannot change the sizes by cex.lab, but you can change by cex: persp(x, y, z, cex=1.5) gives larger labs in persp 3d plot. Of course there may be some side effect because it may change the size something other than labs. HTH On 3/15/07, Joseph Retzer [EMAIL PROTECTED] wrote: I've had no success using what I think is the correct code to change the default size of the x, y and z labels in a persp graph (i.e. cex.lab). Is there a particular specification to accomplish this? Many thanks, Joe Retzer [[alternative HTML version deleted]] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] Problem with factor state when subset()ing a data.frame
Probably, you have to do it by hand. Exactly, I do not know the reason, but I can imagine. Once you define factor, the empty factor is not meaningless. The simple way to do it is refactorize: f-factor(1:3) f [1] 1 2 3 Levels: 1 2 3 factor(f[f!=2]) [1] 1 3 Levels: 1 3 On 2/9/07, Roger Leigh [EMAIL PROTECTED] wrote: Hi folks, I am running into a problem when calling subset() on a large data.frame. One of the columns contains strings which are used as factors. R seems to automatically factor the column when the data.frame is contstructed, and this appears to not get updated when I create a subset of the table. A minimal testcase to demonstrate the problem follows: sample - data.frame(c(A, A, A, A, B, B, B, C, C, C), c(5,3,5,3,6,7,8,3,2,6)) names(sample) - c(ID, Value) print(sample) sample.filtered - subset(sample, ID != B, select=c(ID, Value)) # Or sample.filtered - subset(sample, ID != B, select=c(ID, Value), drop=T) print(sample.filtered) plot(sample.filtered) plot(sample.filtered$Value ~ sample.filtered$ID) print(levels(sample.filtered$ID)) print(levels(factor(sample.filtered$ID))) plot(sample.filtered$Value ~ factor(sample.filtered$ID)) Am I doing something wrong here, or is this an R bug? How can I get the new data.frame to update the factors, so I don't get redundant empty factors on the plot by eliminating the phantom factors? (I also need to remove the unused factors for other analyses, and factoring them by hand seems a little redundant.) Kind regards, Roger -- .''`. Roger Leigh : :' : Debian GNU/Linux http://people.debian.org/~rleigh/ `. `' Printing on GNU/Linux? http://gutenprint.sourceforge.net/ `-GPG Public Key: 0x25BFB848 Please GPG sign your mail. __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] sorting a matrix by a different colnames order
try: mx[,new.col.names] HTH. On 2/7/07, [EMAIL PROTECTED] [EMAIL PROTECTED] wrote: Hi R users, I would like to know how to sort a matrix according a different order of colnames (or rownames) ,e.g., mx = matrix(rnorm(1:20),5,4) colnames(mx) = letters[1:4] rownames(mx) = letters[1:5] mx a b c d a 0.02362598 -0.7033460 0.8106089 -1.03456219 b -0.45021522 -1.5769522 0.1770634 0.27997249 c 1.34732392 0.2956623 2.0027231 -0.85321627 d 0.82314457 1.2698347 -0.5468151 0.05806375 e -0.18668401 -0.4210383 0.6263465 -0.18889031 (new.col.names = sample(letters[1:4])) [1] a b d c so the new matrix has to be ordered according the new.col.names,i.e., a b d c a 0.02362598 -0.7033460 -1.03456219 0.8106089 b -0.45021522 -1.5769522 0.27997249 0.1770634 c 1.34732392 0.2956623 -0.85321627 2.0027231 d 0.82314457 1.2698347 0.05806375 -0.5468151 e -0.18668401 -0.4210383 -0.18889031 0.6263465 Hope this is not a basic question Thank you for your help. Paolo __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] ANOVA Table for Full Linear Model?
summary.lm tells you F, df, and p value. try: summary(regression9) On 2/6/07, Jason R. Finley [EMAIL PROTECTED] wrote: Hello, I have spent a good deal of time searching for an answer to this but have come up empty-handed; I apologize if I missed something that is common knowledge. I am trying to figure out how to get an ANOVA table that shows the sum of squares. degrees of freedom, etc, for the full model versus the error (aka residuals). Here is an example of the kind of table I'd like to get: Analysis of Variance Source DF SS MS FP Regression1 8654.7 8654.7102.350.000 Error75 6342.184.6 Total76 14996.8 This kind of table is prevalent throughout my statistics textbook, and can apparently be easily obtained in other statistical software tools. I'm not saying this as a gripe, but just as evidence that I'm not trying to do something obviously bizarre. Here is an example of the only kind of ANOVA table for a single linear model that I've been able to get using R: regression9 - lm(y ~ x1 + x2 + x3, data=data9) anova.lm(regression9) Analysis of Variance Table Response: y Df Sum Sq Mean Sq F valuePr(F) x1 1 8275.4 8275.4 81.8026 2.059e-11 *** x2 1 480.9 480.9 4.7539 0.03489 * x3 1 364.2 364.2 3.5997 0.06468 . Residuals 42 4248.8 101.2 --- Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1 Is there a way to get an ANOVA table with the full linear regression model considered as a whole rather than broken down into each additional predictor variable? In other words, is there a way to get the former kind of table? Again, apologies if I'm missing something basic. thanks very much, ~jason PS - I am on Mac OSX 10.4.8 using R 2.4.1 GUI 1.18 (4038) ~ Jason R. Finley Graduate Student, Department of Psychology Cognitive Division University of Illinois, Urbana-Champaign [EMAIL PROTECTED] [EMAIL PROTECTED] http://www.jasonfinley.com/ ~ __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] Rconsole - setting the size and location of Windows help files (Rgui)
For the very good reason that you can have multiple pagers and I at least do not want them exactly on top of one another. Yes. and I knew for the first time now that location of new pager is randomly determined. I think it is cool way. On 2/6/07, Prof Brian Ripley [EMAIL PROTECTED] wrote: On Tue, 6 Feb 2007, talepanda wrote: For size, maybe: # Dimensions(in characters) of the internal pager. #pgrows = 25 #pgcolumns = 80 pgrows = 48 pgcolumns = 128 in Rconsole, but location cannot be handled. For the very good reason that you can have multiple pagers and I at least do not want them exactly on top of one another. [...] -- Brian D. Ripley, [EMAIL PROTECTED] Professor of Applied Statistics, http://www.stats.ox.ac.uk/~ripley/ University of Oxford, Tel: +44 1865 272861 (self) 1 South Parks Road, +44 1865 272866 (PA) Oxford OX1 3TG, UKFax: +44 1865 272595 __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] How to reorder rows in dataframe by text flag
I think several ways can do that. my code is: data.frame(t(apply(dat,1,function(x)as.numeric(sub(\\*,,x[sort(1:2,grep(\\*,x)==2)]) HTH On 2/7/07, Dale Steele [EMAIL PROTECTED] wrote: Given two columns of type character in a dataframe of the form: col1col2 31* 66 0 0* 102*66 71* 80 31 2* 66 31* 47 38* How do I generate the following dataframe? Ie. col1 contains row item with * and col2 contains row member without * col1col2 31 66 0 0 102 66 71 80 231 31 66 38 47 Partial ideas thus far grep(*,col1,fixed=T) as.numeric(gsub(*,,col1)) Thanks. --Dale __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] How to reorder rows in dataframe by text flag
I'm sorry, I forgot my definition of dat. dat in code of previous post is: dat-data.frame(col1=c(31*,0,102*,71*,31,66,47),col2=c(66,0*,66,80,2*,31*,38*)) dat col1 col2 1 31* 66 20 0* 3 102* 66 4 71* 80 5 31 2* 6 66 31* 7 47 38* On 2/7/07, talepanda [EMAIL PROTECTED] wrote: I think several ways can do that. my code is: data.frame(t(apply(dat,1,function(x)as.numeric(sub(\\*,,x[sort(1:2,grep(\\*,x)==2)]) HTH On 2/7/07, Dale Steele [EMAIL PROTECTED] wrote: Given two columns of type character in a dataframe of the form: col1col2 31* 66 0 0* 102*66 71* 80 31 2* 66 31* 47 38* How do I generate the following dataframe? Ie. col1 contains row item with * and col2 contains row member without * col1col2 31 66 0 0 102 66 71 80 231 31 66 38 47 Partial ideas thus far grep(*,col1,fixed=T) as.numeric(gsub(*,,col1)) Thanks. --Dale __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] Histogram of ones.
If I correctly understand, hist(rep(1, 100), col=lightblue, border=black,breaks=0:10*0.1) see: breaks arg in ?hist On 2/7/07, Dong H. Oh [EMAIL PROTECTED] wrote: Dear expeRts, I'd like to picture histogram of ones. For example, hist(rep(1, 100), col=lightblue, border=black) A bin is pictured ranging on [0,1] and range of x axis is also [0,1]. How can I adjust the bin range from [0,1] to [0.9, 1] ? I am looking forward to hearing from expeRt. Sincerely, [[alternative HTML version deleted]] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] sort dataframe
d-data.frame(id=1:4,x=c(0.1,0.5,0.2,0),y=c(3,1,9,5)) d id x y 1 1 0.1 3 2 2 0.5 1 3 3 0.2 9 4 4 0.0 5 d[order(d$y),] id x y 2 2 0.5 1 1 1 0.1 3 4 4 0.0 5 3 3 0.2 9 On 2/6/07, XinMeng [EMAIL PROTECTED] wrote: Hello sir: How can I sort a dataframe by sorting one of its column? e.g. dataframe: id x y a 0.1 3 b 0.5 1 c 0.2 9 d 05 I want the dataframe sorted according to y accending,the result is: id xy b 0.5 1 a 0.1 3 d 05 c 0.2 9 Thanks a lot! My best __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] Rconsole - setting the size and location of Windows help files (Rgui)
For size, maybe: # Dimensions(in characters) of the internal pager. #pgrows = 25 #pgcolumns = 80 pgrows = 48 pgcolumns = 128 in Rconsole, but location cannot be handled. On 2/6/07, [EMAIL PROTECTED] [EMAIL PROTECTED] wrote: Hi, Using the Rconsole file I can specify the size and location of the Rgui windows on NT. e.g. # Dimensions (in characters) of the console. rows = 51 columns = 100 How can I specify the size of the help windows that popups when I ask for help? e.g. '?help' I would like the popup window to have say rows = 51 and columns = 100, just like the main window but a different location on the screen. In my .Rprofile file I have set 'options(winhelp=FALSE)'. platform i386-pc-mingw32 arch i386 os mingw32 system i386, mingw32 status major 2 minor 4.1 year 2006 month 12 day18 svn rev40228 language R version.string R version 2.4.1 (2006-12-18) Regards, John. John Gavin [EMAIL PROTECTED], Commodities, FIRC, UBS Investment Bank, 2nd floor, 100 Liverpool St., London EC2M 2RH, UK. Phone +44 (0) 207 567 4289 This communication is issued by UBS AG and/or affiliates to institutional investors; it is not for private persons. This is a product of a sales or trading desk and not the Research Dept. Opinions expressed may differ from those of other divisions of UBS, including Research. UBS may trade as principal in instruments identified herein and may accumulate/have accumulated a long or short position in instruments or derivatives thereof. UBS has policies designed to negate conflicts of interest. This e-mail is not an official confirmation of terms and unless stated, is not a recommendation, offer or solicitation to buy or sell. Any prices or quotations contained herein are indicative only. Communications may be monitored. (c) 2006 UBS. All rights reserved. Intended for recipient only and not for further distribution without the consent of UBS. UBS Limited is a company registered in England Wales under company number 2035362, whose registered office is at 1 Finsbury Avenue, London, EC2M 2PP, United Kingdom. UBS AG (London Branch) is registered as a branch of a foreign company under number BR004507, whose registered office is at 1 Finsbury Avenue, London, EC2M 2PP, United Kingdom. UBS Clearing and Execution Services Limited is a company registered in England Wales under company number 03123037, whose registered office is at 1 Finsbury Avenue, London, EC2M 2PP, United Kingdom. __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
[R] Using invisible function
Dear R-er: I want to use invisible function in some packages. I know that triple colon operater is available. However, how can I use all invisible functions in some packages. One solution is , of course, to use ::: in every use, but is there any workaround? It is similar to using namespace directive in C++. using std::cout; using std::cin; is triple colon approach, and using namespace std; is what I want. The reason why I want this is to modify function in some packages. For example, I want to get the SSs in stats::anova.mlm. This is not difficult, but anova.mlm uses many invisible functions, so I have to use ::: in every use, or, define, e.g. Rank-stats:::Rank etc. in my scope. Thanks in advance. __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] lattice: two grouping variables, one controls 'col', the other 'pch'
Currently, both color and plotting symbol does not change with the
grouping variable g1, that is, when
g1-rep(5:8,each=64)
,plotxy still generates same plot.
subscripts argument is useful for your purpose.
see:
panel section and details in
?xyplot
try:
plot-xyplot(y~x|f,
groups=g1,
panel=function(x,y,subscripts,groups,...){
panel.superpose(x,y,subscripts,groups,pch=g2[subscripts],col=g1[subscripts],...)
})
HTH
On 1/29/07, Benjamin Tyner [EMAIL PROTECTED] wrote:
Say I have
library(lattice)
x-runif(256)
y-runif(256)
f-gl(16,16)
g1-rep(1:4,each=64)
g2-rep(1:4,times=64)
plot-xyplot(y~x|f,
groups=g1,
pch=as.character(1:4),
panel=function(x,y,subscripts,groups,...){
panel.superpose(x,y,subscripts,groups,...)
})
print(plot)
Currently, both color and plotting symbol change with the grouping
variable g1. What is the best way to have color change with g1, but
plotting symbol change with g2 (or vice versa)?
Thanks,
Ben
__
R-help@stat.math.ethz.ch mailing list
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.
__
R-help@stat.math.ethz.ch mailing list
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.
Re: [R] Canging the type of point points sizein plots..
try: plot(1:10,pch=1:10,cex=1:10) pch specifies the types and cex specifies the sizes of symbols. On 1/28/07, vinod gullu [EMAIL PROTECTED] wrote: I want to plot variation of more than one variable in single plot with different point types and points sizes . Can someone help me to do that, Thanks in advance. vinod Now that's room service! Choose from over 150,000 hotels __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] defining function into another function
First question: Yes
Second question: z in func.int2 is z in myfunc (z=y^3).
You can easily test:
f0-function(){
z-1
f1-function()print(f1)
f2-function(z){f1();print(z)}
f2(z)
}
z-0
f0()
R language definition may be helpful
http://cran.r-project.org/doc/manuals/R-lang.html#Scope-of-variables
On 1/26/07, domenico pestalozzi [EMAIL PROTECTED] wrote:
If I define my function that includes others internal functions, how can I
define the parameter's functions?
That is:
myfunc-function(y){...
func.int1- function(x){ sum(x}}
func.int2-function(z){funct.int1(z)^2} .
}
Is it possible to use func.int1 into func.into2? or R doesn't identify
func.int1 into func.into2?
Another question:
If I do
myfunc-function(y){...
z-y^3
func.int1- function(x){ sum(x}}
func.int2-function(z){z^2}
.
}
func.int2 is based on z, but now is z=y^3 or a generical object?
thanks
pestalozzi
[[alternative HTML version deleted]]
__
R-help@stat.math.ethz.ch mailing list
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.
__
R-help@stat.math.ethz.ch mailing list
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.
Re: [R] Substring error
It occurs why start or stop could not be converted into integer of length 0 by using as.interger(). More presicely, if( !isInteger(sa) || !isInteger(so) || k == 0 || l == 0 ) # c code where sa is start, so is stop, k is length(start), l is length(stop) For example: substr(orz,character(0),0) substr(orz,numeric(0),0) substr(orz,logical(0),0) substr(orz,integer(0),0) substr(orz,NULL,0) produce the error because of k==0 But there seems to be another case which I don't know. On 1/25/07, Shubha Vishwanath Karanth [EMAIL PROTECTED] wrote: Hi, Do anybody know when and why the below error we get? Error in substr(x, as.integer(start), as.integer(stop)) : invalid substring argument(s) in substr() Thanks in advance, Shubha [[alternative HTML version deleted]] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] Checking for the existence of an R object
see: ?exists HTH. On 1/24/07, Shubha Vishwanath Karanth [EMAIL PROTECTED] wrote: Hi, Is there any way to check whether an R object exists or not? Say example: a data frame. Thanks, Shubha [[alternative HTML version deleted]] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] Vector to Matrix transformation
non-elegant solution: matrix(c(V1,rep(NA,-length(V1)%%5)),nrow=5) HTH. On 1/24/07, Shubha Vishwanath Karanth [EMAIL PROTECTED] wrote: How to suppress the recycling of items in a matrix..instead NA can be filled. -Original Message- From: Chuck Cleland [mailto:[EMAIL PROTECTED] Sent: Tuesday, January 23, 2007 8:00 PM To: Shubha Vishwanath Karanth Cc: r-help@stat.math.ethz.ch Subject: Re: [R] Vector to Matrix transformation Shubha Vishwanath Karanth wrote: Hi R, I have a vector V1 of unknown length, say n. I need to convert this into a matrix C of row size=5, and accordingly the column should be updated. I tried with: C=as.matrix(V1,5,n/5) But it is not working...Could somebody help me on this? You could try the following: matrix(V1, nrow=5) but note what happens when the length of V1 is not a multiple of 5. Thanks in advance... [[alternative HTML version deleted]] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. -- Chuck Cleland, Ph.D. NDRI, Inc. 71 West 23rd Street, 8th floor New York, NY 10010 tel: (212) 845-4495 (Tu, Th) tel: (732) 512-0171 (M, W, F) fax: (917) 438-0894 __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] Date variable
For Date class, *original* (that is, contents in memory) is 12853, and 2005-03-11 is one expression of the original. So you have to convert from the original to the charecter expression as follows. s[1]-format(date) s [1] 2005-03-11 FALSE FALSE s[1]-as.character(date) s [1] 2005-03-11 FALSE FALSE BTW, I think s = vector(character, length=3) is more preferable for your purpose. HTH. On 1/24/07, stat stat [EMAIL PROTECTED] wrote: Dear R users, I did following with a date variable library(date) date = 03/11/05 date = as.Date(date, format=%m/%d/%y) date [1] 2005-03-11 s = vector(length=3) s[1] = date s[1] [1] 12853 But here I got s[1] as 12853. But this is not that I want. I need s[1] as original date. Can anyone tell me where is the mistake? Thanks and regards, - Here's a new way to find what you're looking for - Yahoo! Answers [[alternative HTML version deleted]] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] how to change the dataframe labels' ?
rownames()- is what you want. dat-data.frame(V1=sample(10),V2=sample(10)) dat V1 V2 1 2 5 2 3 8 3 8 4 4 9 6 5 6 2 6 5 7 7 10 3 8 4 9 9 1 10 10 7 1 dat-dat[order(dat$V2),] dat V1 V2 10 7 1 5 6 2 7 10 3 3 8 4 1 2 5 4 9 6 6 5 7 2 3 8 8 4 9 9 1 10 rownames(dat)-1:dim(dat)[1] ## or rownames(dat)-dat$V2 dat V1 V2 1 7 1 2 6 2 3 10 3 4 8 4 5 2 5 6 9 6 7 5 7 8 3 8 9 4 9 10 1 10 HTH On 1/24/07, domenico pestalozzi [EMAIL PROTECTED] wrote: I import a dataframe composed by 2 variables and 14000 cases. Now I need the labels of the cases sorted by the second variable V2, but if I sort the dataframe according to the second variable: mydataframe- mydataframe[order(mydataframe$V2),] I notice that the labels are always the same (that is, not ordered by V2). How to change them? I tried : labels(mydataframe)-1:14000 but it doesn't work. Thanks domenico [[alternative HTML version deleted]] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] how to change the dataframe labels' ?
I did not know the fact. Thanks for useful information. On 1/24/07, Prof Brian Ripley [EMAIL PROTECTED] wrote: Sorry, no: row.names-() is what you want. rownames for matrices (and arrays) row.names for data frames. Using them the other way round usually works but can be very inefficient. From R-devel (where the worst inefficiencies are circumvented) The extractor functions try to do something sensible for any matrix-like object 'x'. If the object has 'dimnames' the first component is used as the row names, and the second component (if any) is used for the column names. For a data frame, 'rownames' and 'colnames' are calls to 'row.names' and 'names' respectively, but the latter are preferred. On Wed, 24 Jan 2007, talepanda wrote: rownames()- is what you want. dat-data.frame(V1=sample(10),V2=sample(10)) dat V1 V2 1 2 5 2 3 8 3 8 4 4 9 6 5 6 2 6 5 7 7 10 3 8 4 9 9 1 10 10 7 1 dat-dat[order(dat$V2),] dat V1 V2 10 7 1 5 6 2 7 10 3 3 8 4 1 2 5 4 9 6 6 5 7 2 3 8 8 4 9 9 1 10 rownames(dat)-1:dim(dat)[1] ## or rownames(dat)-dat$V2 dat V1 V2 1 7 1 2 6 2 3 10 3 4 8 4 5 2 5 6 9 6 7 5 7 8 3 8 9 4 9 10 1 10 HTH On 1/24/07, domenico pestalozzi [EMAIL PROTECTED] wrote: I import a dataframe composed by 2 variables and 14000 cases. Now I need the labels of the cases sorted by the second variable V2, but if I sort the dataframe according to the second variable: mydataframe- mydataframe[order(mydataframe$V2),] I notice that the labels are always the same (that is, not ordered by V2). How to change them? I tried : labels(mydataframe)-1:14000 but it doesn't work. Thanks domenico [[alternative HTML version deleted]] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. -- Brian D. Ripley, [EMAIL PROTECTED] Professor of Applied Statistics, http://www.stats.ox.ac.uk/~ripley/ University of Oxford, Tel: +44 1865 272861 (self) 1 South Parks Road, +44 1865 272866 (PA) Oxford OX1 3TG, UKFax: +44 1865 272595 __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] Days of the week?
?Date seems to say that weekdays() is appropriate for that: weekdays(as.Date(2006-12-01)) see: ?weekdays On 1/25/07, John McHenry [EMAIL PROTECTED] wrote: Hi WizaRds, What is the standard way to get the day of the week from a date such as as.Date(2006-12-01)? It looks like fCalendar has some functions but this requires a change in the R locale to GMT. Is there another way? Thanks! Jack. - Be a PS3 game guru. [[alternative HTML version deleted]] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] command-line arguments in R
see: ?commandArgs or more detail for R startup mechanisms: ?Startup On 1/22/07, Deepak Chandra [EMAIL PROTECTED] wrote: Hi All, A simple and naive question from a newbie. How can one access command-line arguments in R i.e. equivalent of argv in C? Have spent a lot of time on finding it. Also, it will be useful if someone can point me out to a resource which I could have used to answer this question or similar ones. Thanks, Deepak [[alternative HTML version deleted]] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] How to disable existing menus in tcltk?
play below after your code and look at tk window: tkentryconfigure(editMenu,0,state=disable) tkentryconfigure(editMenu,0,state=active) tkentryconfigure(topMenu,1,state=disable) tkentryconfigure(topMenu,1,state=active) HTH On 1/22/07, Jarno Tuimala [EMAIL PROTECTED] wrote: Hi! I've constructed a small menu-driven interface to a couple of R functions using the possibilities offered by the tcltk package. When user runs some specific analyses, I would then like to disable some of the menus (or menu choises) that are not applicable after the performed analysis. I tried to modify the state of an existing menu, but it seems that neither tkconfigure nor tkentryconfigure contains the state as one of its options. Here's a snip of the code. How could I disable, for example, the Edit data menu choise after already creating the menu (I want it to be active initially)? gui-tktoplevel() topMenu-tkmenu(gui) tkconfigure(gui,menu=topMenu) editMenu-tkmenu(topMenu, tearoff=FALSE) tkadd(editMenu, command, label=Edit data, command=function() editData()) tkadd(editMenu, command, label=Preferences, command=function() editPref()) tkadd(topMenu, cascade, label=Edit, menu=editMenu) Thanks, Jarno Tuimala __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] Query about using try block
Usually (that is, not limited in R language), when error occurs in
try, stacks are rollbacked, so the variables defined in try no longer
exists after calling try.
One non-elegant solution is:
fit-NULL
try ( (fit = lm(y~x, data = data_fitting)), silent =T)
if(!is.null(fit)){
coeffs = as.list(coef(fit))
## other subsequent processes
}
On 1/23/07, lalitha viswanath [EMAIL PROTECTED] wrote:
Hi
Thanks for your response.
However I seem to be doing something wrong regarding
the try block resulting in yet another error described
below.
I have a function that takes in a file name and
does the fit for the data in that file.
Hence based on your input, I tried
try ( (fit = lm(y~x, data = data_fitting)), silent =
T);
I left the subsequent lines of my code unchanged.
coeffs = as.list(coef(fit);
lambda = exp(coeffs$x)
After the change using try, when I tried to resume
processing under R as follows
source(fitting.R)
for filename in list { process(filename); }
It says Cannot find object fit ...(in the line
trying to get the coefficients...)
Am I closing the try block in the wrong place?
This function does some post processing on the
coefficients returned by coef(fit), puts them in a
list and sends it to another function.
(i.e. around 6 lines of code after the call to fit).
Thanks
Lalitha
--- Andreas Hary [EMAIL PROTECTED] wrote:
Look at ?try
Your code will probably need to be something like
the following:
fit - list()
for(fileId in 1:n){
try(fit[i] - lm(formula,data=???,...), silent=F)
#or silent=T if you would like to be made aware
of problems
}
Best wishes,
Andreas
lalitha viswanath wrote:
Hi
I am a newbie to R and am using the lm function
to
fit my data.
This optimization is to be performed for around
45000
files not all of which lend themselves to
optimization. Some of these will and do crash.
However, How do I ensure that the program simply
goes
to the next file in line without exiting the code
with
the error
Error in lm.fit(x, y, offset = offset,
singular.ok =
singular.ok, ...) :
NA/NaN/Inf in foreign function call (arg
4)
everytime it encounters troublesome data?
I would greatly appreciate your input as it would
avoid me having to manually type
for fileId in (c(4351:46000)) { ... }
for fileId in (c(5761:46000)) { ... }, etc...
Thanks
Lalitha
Now that's room service! Choose from over 150,000
hotels
__
R-help@stat.math.ethz.ch mailing list
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide
http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained,
reproducible code.
--
=
Andreas Hary
Flat 5, 70 Finsbury Park Road
Lond, N4 2JX, UK
Email: [EMAIL PROTECTED]
Mobile: 07906 860 987
Want to start your own business?
__
R-help@stat.math.ethz.ch mailing list
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.
__
R-help@stat.math.ethz.ch mailing list
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.
Re: [R] factor()
TeamInfo TEAMNAME LEVEL WORKTIME BONUS 1 batch sunan B 135 9,818 2 batch Chenqi E 121 6,050 3 batch jiangxu F 97 4,189 4 online zhouxi F 63 2,720 5 online chenhe H 36 1,064 ## try: factor(TeamInfo$TEAM) [1] batch batch batch online online Levels: batch online ## or attach(TeamInfo) factor(TEAM) [1] batch batch batch online online Levels: batch online On 1/23/07, qing [EMAIL PROTECTED] wrote: Dear All, I am running Windows XP, R 2.4.1, and doing an example about factor(). read.csv(c:\\TeamInfo.csv)-TeamInfo; TeamInfo; TEAMNAME LEVEL WORKTIME BONUS 1 batch sunan B 135 9,818 2 batch Chenqi E 121 6,050 3 batch jiangxu F 97 4,189 4 online zhouxi F 63 2,720 5 online chenhe H 36 1,064 6 online NA 7 online NA 8 online NA 9 online NA 10 client NA 11 client NA 12 client NA 13 client NA 14 client NA factor(TEAM)-Teamactor; Error in typeof(x) : object TEAM not found Any help or suggestions that you can provide will be greatly appreciated. Qing __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] label option in 'barplot'?
Probably, you have to manually create, but it is easy: # for beside=F mp - barplot(VADeaths) text(mp,y-t(apply(VADeaths,2,cumsum)),y) # labels are values itself # or mp - barplot(VADeaths) text(mp,t(apply(VADeaths,2,cumsum)),VADeaths) # labels are cumsum of values # for besides=T mp - barplot(VADeaths,beside=T) text(mp,VADeaths,VADeaths) ## maybe some adjustment is required for y position, then, for example, mp - barplot(VADeaths,beside=T) text(mp,VADeaths+3,VADeaths) HTH On 1/18/07, Justin Gengler [EMAIL PROTECTED] wrote: Hello all, When using the 'barplot' function, how would one go about creating labels on the top of the bars corresponding to the actual frequency values (i.e., the height of the bar). For histograms, one can use the 'LABEL=T' parameter to this effect, but it is not available for barplot. Must one manually create such labels for a barplot (perhaps using mtext)? Thanks. Justin Gengler __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] how to get the index of entry with max value in an array?
In R language, one solution is: a-c(3,4,6,2,3) which(a==max(a)) On 1/18/07, Feng Qiu [EMAIL PROTECTED] wrote: Hi all: A short question: For example, a=[3,4,6,2,3], obviously the 3rd entry of the array has the maxium value, what I want is index of the maxium value: 3. is there a neat expression to get this index? Thank you! Best, Feng [[alternative HTML version deleted]] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] Problem with pdf, png, jpeg devices and files named CON on Window s
It's not R problem but specification of windows file system.
see MSDN:
http://msdn2.microsoft.com/en-us/library/aa365247.aspx
On 1/15/07, Brandt, T. (Tobias) [EMAIL PROTECTED] wrote:
Hi
I cannot seem to create any files that have the name CON before the file
extension, i.e. all of the following fail:
pdf(CON.pdf)
Error in pdf(CON.pdf) : unable to start device pdf
jpeg('CON.jpeg')
Error in jpeg(CON.jpeg) : unable to start device devWindows
png('CON.png')
Error in png(CON.png) : unable to start device devWindows
sink('CON.txt')
Error in file(file, ifelse(append, a, w)) :
unable to open connection
Any filename other than this works fine.
png('ICON.png')
dev.off()
null device
1
png('CON1.png')
dev.off()
null device
1
sink('log.txt')
sink()
Remembering that in the old DOS days, commands like 'copy CON myfile.bat'
were common, I suspected that this has something to do with CON being a
reserved word so I tried to create the files manually in Windows explorer.
Creating files named 'CON.png', 'CON.pdf', 'CON.txt' all work fine. However
I did notice that Windows won't let me create a file named just CON.
However since the devices that I'm trying to create have extensions, I don't
understand why they fail.
Who can help?
Thanks
Tobias
version
_
platform i386-pc-mingw32
arch i386
os mingw32
system i386, mingw32
status
major 2
minor 3.1
year 2006
month 06
day01
svn rev38247
language R
version.string Version 2.3.1 (2006-06-01)
Sys.info()
sysname release
version nodename
Windows NT 5.1 (build 2600)
Service Pack 2
machine login
user
x86
Nedbank Limited Reg No 1951/09/06. The following link displays the names
of the Nedbank Board of Directors and Company Secretary. [
http://www.nedbank.co.za/terms/DirectorsNedbank.htm ]
This email is confidential and is intended for the addressee only. The
following link will take you to Nedbank's legal notice. [
http://www.nedbank.co.za/terms/EmailDisclaimer.htm ]
__
R-help@stat.math.ethz.ch mailing list
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.
__
R-help@stat.math.ethz.ch mailing list
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.
Re: [R] levelplot not adjusting colors
col.region changes both colors in plot and colorkey. try: x - seq(pi/4, 5 * pi, length = 100) y - seq(pi/4, 5 * pi, length = 100) levelplot(z~x*y) #default levelplot(z~x*y,col.regions=rainbow(24)) #custom color On 1/11/07, Bram Kuijper [EMAIL PROTECTED] wrote: Hi all, I try to make a levelplot from the Trellis graphics package of count data given a certain x and y variable. The problem is that I can adjust the colorkey colors, but the colors of the actual values in the plot will be unchanged if I change the colorkey. e.g. my_lvl_plot - levelplot(my_z ~ my_x * my_y, colorkey = list(col=some_color_vector)) will result in a levelplot that draws new colors in the colorkey, but still draws the default colors in the plotting space. anybody ideas how to change also the colors in the plotting space to the values depicted in the color key? thanks, Bram __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] labels outliers in boxplot
because given data is a part of your data, I cannot examine, however, try: ##out.block-identify(tb_ncs$y,tb_ncs$Slide) out.block-identify(tb_ncs$Slide,tb_ncs$y) On 1/11/07, [EMAIL PROTECTED] [EMAIL PROTECTED] wrote: Dear R-users, Following is part of my data, where slide has 36 levels and block 48 levels. I have done boxplot for each slide on the same graph. There are outliers for each slide and I tried to use indentify functtion to identify outliers in such a way that when I click on an outlier or point, the points will be labelled by either their block or ID or by both but without success. How can I make it work or are there other ways to do it than using identify function? Thanks in advance, Jenny, dat1[1:10,] y Slide Block ID Control 1 0.03147823 1 1 IgG-human 5 2 -0.23815974 1 1 LPPAANDVSVLTAAR 0 3 -0.71926359 1 1 HTKHYRVVSKPAALV 0 4 -0.14607826 1 1 FVALPAATADAYATT 0 5 0.89553073 1 1 NYPAMMAHAGDMAGY 0 6 -0.67587100 1 1 RRALRQIGVLERPVG 0 7 0.32636034 1 1 DCGTIRVGSFRGRWL 0 8 -1.44057259 1 1 MAKLSTDELLDAFKE 0 9 -0.37064338 1 1 LELSDFVKKFEETFE 0 10 -0.20387233 1 1 VSRRAKVDVLIVHTT 0 tb_ncs-subset(dat1,dat1$Control==1) ### this data contains only negative controls par(las=2,mar=c(10.1,4.1,4.1,2.1)) boxplot(split(tb_ncs$y,tb_ncs$Slide),col=orange, cex=.65, outline=TRUE,main=Negative control response of each patient, cex.main=1, font.main=1, col.main=blue, names=c(1:35,B)) grid(nx=NA, ny=NULL) ### grid over boxplot legend(bottomright, B = Buffer + sec,text.col=blue) out.block- identify(tb_ncs$y,tb_ncs$Slide) _ Flyger tiden iväg? Fånga dagen med Yahoo! Mails inbyggda __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] labels outliers in boxplot
you can get them from return value, try: out.id-identify(tb_ncs$Slide,tb_ncs$y) out.block-tb_ncs[out.id,]$Block On 1/12/07, [EMAIL PROTECTED] [EMAIL PROTECTED] wrote: Dear talepande, Thanks for your suggestion, I have already tried to use it, but the identify function gave me only the observation number everytime I clicked on any point.What I want is instead of obervation numbers it would be block and/or slide numbers. Any other idea how I can make it works ? Thanks --- talepanda [EMAIL PROTECTED] skrev: because given data is a part of your data, I cannot examine, however, try: ##out.block-identify(tb_ncs$y,tb_ncs$Slide) out.block-identify(tb_ncs$Slide,tb_ncs$y) On 1/11/07, [EMAIL PROTECTED] [EMAIL PROTECTED] wrote: Dear R-users, Following is part of my data, where slide has 36 levels and block 48 levels. I have done boxplot for each slide on the same graph. There are outliers for each slide and I tried to use indentify functtion to identify outliers in such a way that when I click on an outlier or point, the points will be labelled by either their block or ID or by both but without success. How can I make it work or are there other ways to do it than using identify function? Thanks in advance, dat1[1:10,] y Slide Block ID Control 1 0.03147823 1 1 IgG-human 5 2 -0.23815974 1 1 LPPAANDVSVLTAAR 0 3 -0.71926359 1 1 HTKHYRVVSKPAALV 0 4 -0.14607826 1 1 FVALPAATADAYATT 0 5 0.89553073 1 1 NYPAMMAHAGDMAGY 0 6 -0.67587100 1 1 RRALRQIGVLERPVG 0 7 0.32636034 1 1 DCGTIRVGSFRGRWL 0 8 -1.44057259 1 1 MAKLSTDELLDAFKE 0 9 -0.37064338 1 1 LELSDFVKKFEETFE 0 10 -0.20387233 1 1 VSRRAKVDVLIVHTT 0 tb_ncs-subset(dat1,dat1$Control==1) ### this data contains only negative controls par(las=2,mar=c(10.1,4.1,4.1,2.1)) boxplot(split(tb_ncs$y,tb_ncs$Slide),col=orange, cex=.65, outline=TRUE,main=Negative control response of each patient, cex.main=1, font.main=1, col.main=blue, names=c(1:35,B)) grid(nx=NA, ny=NULL) ### grid over boxplot legend(bottomright, B = Buffer + sec,text.col=blue) out.block- identify(tb_ncs$y,tb_ncs$Slide) _ Flyger tiden iväg? Fånga dagen med Yahoo! Mails inbyggda __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. _ Flyger tiden iväg? Fånga dagen med Yahoo! Mails inbyggda kalender. Dessutom 250 MB gratis, virusscanning och antispam. Få den på: http://se.mail.yahoo.com __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] What command does the cin in R ?
try: readLines(n=1)-str On 1/13/07, Tong Wang [EMAIL PROTECTED] wrote: Hi all, Sorry about the simple question, but I have searched the web with prompt , input etc. and never got the answer . thanks a lot tong __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] where is the NIR dataset?
NIR seems to be not dataset. It is a member of dataset yarn. Try: library(pls) data(yarn) str(yarn) On 1/10/07, Carmen Meier [EMAIL PROTECTED] wrote: I did just the download of the pls package, but the NIR dataset is not available require(pls) [1] TRUE data(NIR) Warning message: data set 'NIR' not found in: data(NIR) is there another package with the dataset for the examples? With regards Carmen __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] where is the NIR dataset?
See changelog of pls 2.0-0 - The 'NIR' and 'sensory' data sets have been renamed to 'yarn' and 'oliveoil'. you can see it in package source from CRAN http://cran.r-project.org/src/contrib/Descriptions/pls.html HTH On 1/10/07, Carmen Meier [EMAIL PROTECTED] wrote: talepanda schrieb: NIR seems to be not dataset. It is a member of dataset yarn. Try: but i seems that it was a dataset NIR: have a look to a former question: http://finzi.psych.upenn.edu/R/Rhelp02a/archive/47269.html / require(pls) / / data(NIR) / / class(NIR) / / [1] data.frame / / / With regards Carmen __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] manipulating elements of lists
Maybe I misunderstand what you want to do, one solution is: l1 $a [1] 1 2 $b [1] 1 2 3 $c [1] 1 2 3 4 l2 V1 V2 1 d nd 2 c nc 3 b nb 4 a na names(l1)-sapply(names(l1),function(n)l2[l2$V1==n,2]) l1 $na [1] 1 2 $nb [1] 1 2 3 $nc [1] 1 2 3 4 On 1/10/07, Christoph Heibl [EMAIL PROTECTED] wrote: I want to manipulate lists as described below: Imagine these two lists: list1 $WR7 [1] 1 2 3 4 $YH5YH6 [1] 3 4 5 6 7 $YH4 [1] 4 5 $UC4UC8 [1] 4 5 6 7 8 9 list2 V1 V2 1WR7 Averrhoa 2 ? Sarcotheca 3 YH5YH6 caesia 4YH4 arbuscula 5 UC4UC8 rosea 6 ? acetosella How can I exchange the names(list1) by the entries in the second column of list2, if (a) length(list1) ≠ length(list2) and (b) the elements of both lists are not in the same order? Is there a easy way to do this? Thank you! Christoph Heibl PhD student 'Phylogenetics and phylogeography of endemic Atacama Desert flora' Systematic Botany Ludwig-Maximilians-Universität München Menzinger Str. 67 D-80638 München GERMANY phone: +49-(0)89-17861-251 e-mail:[EMAIL PROTECTED] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] Multiple plots via sapply or lapply?
try apply() :
par(new=F);
apply(s,2,function(x){plot(x[[1]],x[[2]],type=o);par(new=T)})
On 1/8/07, Antje [EMAIL PROTECTED] wrote:
Hi all,
I've got the following problem. I have a vector containing file names. I
want to read these files as csv and calculate the density-function for
each file (has just one column with data). Then, I'd like to plot all
density functions into one window. I did the following to calculate the
density data:
s - sapply(filelist, function(x) {
if(file.exists(x))
{
file - read.csv(x, sep=\t, header=F)
return( list(density(file$V1)$x, density(file$V1)$y))
}
})
Now I would like to plot these x,y data in a similar way but my result
s is a matrix containing lists...
File1.csv File2.csv File3.csv
[1,] Numeric,512 Numeric,512 Numeric,512
[2,] Numeric,512 Numeric,512 Numeric,512
Now I don't know how to handle the x,y values for each plot into an
sapply (or lapply, I don't know)
Any idea? Maybe, I should somehow change the return type?
Antje
__
R-help@stat.math.ethz.ch mailing list
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.
__
R-help@stat.math.ethz.ch mailing list
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.
Re: [R] ifelse on data frames
It can be explained. class(A) [1] data.frame length(A) [1] 5 class(A==0) [1] matrix length(A==0) [1] 10 class(-A*log(A)) [1] data.frame length(-A*log(A)) [1] 5 as you can see, the result of A==0 is matrix with length=10, while the result of -A*log(A) is still data.frame with length=5. then, when calling ifelse( [length=10], 0, [length=5] ), internally, the NO(3rd) argument was repeated by rep(-A*log(A),length.out=10) (try this). the result is list with length=10 and each element has 2 sub-elements. So, the return value of A[(A==0)==FALSE] has 2 sub-elements as you get. I think what confusing you is the behavior of A==0. However, when using 'ifelse', I think you should use matrix as the arguments because data.frame is not consistent with the purpose of 'ifelse'. On 1/5/07, [EMAIL PROTECTED] [EMAIL PROTECTED] wrote: [Using R 2.2.0 on Windows XP; OK, OK, I will update soon!] I have noticed some undesirable behaviour when applying ifelse to a data frame. Here is my code: A - scan() 1.00 0.00 0.00 0 0.0 0.027702 0.972045 0.000253 0 0.0 A - matrix(A,nrow=2,ncol=5,byrow=T) A == 0 ifelse(A==0,0,-A*log(A)) A - as.data.frame(A) ifelse(A==0,0,-A*log(A)) and this is the output: A - scan() 1: 1.00 0.00 0.00 0 0.0 6: 0.027702 0.972045 0.000253 0 0.0 11: Read 10 items A - matrix(A,nrow=2,ncol=5,byrow=T) A == 0 [,1] [,2] [,3] [,4] [,5] [1,] FALSE TRUE TRUE TRUE TRUE [2,] FALSE FALSE FALSE TRUE TRUE ifelse(A==0,0,-A*log(A)) [,1] [,2][,3] [,4] [,5] [1,] 0. 0. 0.000 [2,] 0.09934632 0.02756057 0.00209537700 A - as.data.frame(A) ifelse(A==0,0,-A*log(A)) [[1]] [1] 0. 0.09934632 [[2]] [1]NaN 0.02756057 [[3]] [1] 0 [[4]] [1] NaN NaN [[5]] [1] 0 [[6]] [1] 0. 0.09934632 [[7]] [1] 0 [[8]] [1] 0 [[9]] [1] 0 [[10]] [1] 0 Is this a bug or a feature? Can the behaviour be explained? Regards, Murray Jorgensen -- Dr Murray Jorgensen http://www.stats.waikato.ac.nz/Staff/maj.html Department of Statistics, University of Waikato, Hamilton, New Zealand Email: [EMAIL PROTECTED]Fax 7 838 4155 Phone +64 7 838 4773 wkHome +64 7 825 0441Mobile 021 1395 862 __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] How to write string dynamicly?
You have to create *formula* object from string and pass it to lda(). See my previous post. On 12/29/06, Feng Qiu [EMAIL PROTECTED] wrote: Hi Gabor: Thank you! But it didn't work. Since lda() takes the variable name as the input parameter. So what I was trying to do is make the name dynamically. I used sprintf() to generate a variable name, such as V16. But it seems that the function doesn't recognize the generated name. For example, lda(V16,data=mydata) works, But, lda(sprintf(V%d,k),data=mydata) does not work, where k=16. So I guess the name generated by sprintf is not the parameter wanted. But I have no idea about it. Best, Feng - Original Message - From: Gabor Grothendieck [EMAIL PROTECTED] To: Feng Qiu [EMAIL PROTECTED] Cc: r-help@stat.math.ethz.ch Sent: Wednesday, December 27, 2006 1:56 PM Subject: Re: [R] How to write string dynamicly? Try: lda(iris[-5], iris[,5]) On 12/26/06, Feng Qiu [EMAIL PROTECTED] wrote: Hi everyone: I'm trying to compose a string dynamicly for the parameter input of some function. For example: In package MASS, function lda() require to input the name of predictor variable. Let's say the 16th column is the predictor variable. Then we call the function like this: lda(V16~., data=mydata). I don't want to hard-code the call, instead, I would like to use a dynamic expression for this parameter so that I can use my program on different set of data. I guess there,- are some function that can do this, but I didn't find it in Introduction to R so far, could someone please tell me this kind of function? Thank you! Best, Feng __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/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 write string dynamicly?
Generally, you can create formula from string: lda(formula(paste(names(iris)[5],~.)),iris) On 12/29/06, Feng Qiu [EMAIL PROTECTED] wrote: Hi Gabor: Thank you! But it didn't work. Since lda() takes the variable name as the input parameter. So what I was trying to do is make the name dynamically. I used sprintf() to generate a variable name, such as V16. But it seems that the function doesn't recognize the generated name. For example, lda(V16,data=mydata) works, But, lda(sprintf(V%d,k),data=mydata) does not work, where k=16. So I guess the name generated by sprintf is not the parameter wanted. But I have no idea about it. Best, Feng - Original Message - From: Gabor Grothendieck [EMAIL PROTECTED] To: Feng Qiu [EMAIL PROTECTED] Cc: r-help@stat.math.ethz.ch Sent: Wednesday, December 27, 2006 1:56 PM Subject: Re: [R] How to write string dynamicly? Try: lda(iris[-5], iris[,5]) On 12/26/06, Feng Qiu [EMAIL PROTECTED] wrote: Hi everyone: I'm trying to compose a string dynamicly for the parameter input of some function. For example: In package MASS, function lda() require to input the name of predictor variable. Let's say the 16th column is the predictor variable. Then we call the function like this: lda(V16~., data=mydata). I don't want to hard-code the call, instead, I would like to use a dynamic expression for this parameter so that I can use my program on different set of data. I guess there,- are some function that can do this, but I didn't find it in Introduction to R so far, could someone please tell me this kind of function? Thank you! Best, Feng __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/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 write string dynamicly?
Try this: lda(formula(paste(names(iris)[5],~.)),iris) You have to create *formula* object from string and pass it to lda(). On 12/29/06, Feng Qiu [EMAIL PROTECTED] wrote: Hi Gabor: Thank you! But it didn't work. Since lda() takes the variable name as the input parameter. So what I was trying to do is make the name dynamically. I used sprintf() to generate a variable name, such as V16. But it seems that the function doesn't recognize the generated name. For example, lda(V16,data=mydata) works, But, lda(sprintf(V%d,k),data=mydata) does not work, where k=16. So I guess the name generated by sprintf is not the parameter wanted. But I have no idea about it. Best, Feng - Original Message - From: Gabor Grothendieck [EMAIL PROTECTED] To: Feng Qiu [EMAIL PROTECTED] Cc: r-help@stat.math.ethz.ch Sent: Wednesday, December 27, 2006 1:56 PM Subject: Re: [R] How to write string dynamicly? Try: lda(iris[-5], iris[,5]) On 12/26/06, Feng Qiu [EMAIL PROTECTED] wrote: Hi everyone: I'm trying to compose a string dynamicly for the parameter input of some function. For example: In package MASS, function lda() require to input the name of predictor variable. Let's say the 16th column is the predictor variable. Then we call the function like this: lda(V16~., data=mydata). I don't want to hard-code the call, instead, I would like to use a dynamic expression for this parameter so that I can use my program on different set of data. I guess there,- are some function that can do this, but I didn't find it in Introduction to R so far, could someone please tell me this kind of function? Thank you! Best, Feng __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/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 write string dynamicly?
Generally, you can create formula from string: lda(formula(paste(names(iris)[5],~.)),iris) On 12/28/06, Gabor Grothendieck [EMAIL PROTECTED] wrote: Try: lda(iris[-5], iris[,5]) On 12/26/06, Feng Qiu [EMAIL PROTECTED] wrote: Hi everyone: I'm trying to compose a string dynamicly for the parameter input of some function. For example: In package MASS, function lda() require to input the name of predictor variable. Let's say the 16th column is the predictor variable. Then we call the function like this: lda(V16~., data=mydata). I don't want to hard-code the call, instead, I would like to use a dynamic expression for this parameter so that I can use my program on different set of data. I guess there,- are some function that can do this, but I didn't find it in Introduction to R so far, could someone please tell me this kind of function? Thank you! Best, Feng __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/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] Dates in R
Try: as.date(Date1)-as.date(Date2) On 12/28/06, Brian Edward [EMAIL PROTECTED] wrote: Hello all, Can somebody point me to references or provide some code on dealing with this date issue. Basically, I have two vectors of values that represent dates. I want to convert these values into a date format and subtract the differences to show elapsed time in days. More specifically, here is the example: Date1 Date2 032398061585 032398061585 111694101994 111694101994 062695021595 051898111597 072495040195 072495040195 The dates are in the mmddyy format, but when I attempt to format these in R with the function, date.mmddyy(Date1), I get very odd results. Any help on this matter would be greatly appreciated! Thanks in advance, Brian [[alternative HTML version deleted]] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] defining color sequence in image()
one solution is: img1-matrix(1:5) img2-matrix(2:5) col-1:5 # col-c(green,yellow,...) image(img1,col=col[sort(unique(img1))]) image(img2,col=col[sort(unique(img2))]) On 12/26/06, Milton Cezar Ribeiro [EMAIL PROTECTED] wrote: Dear All, How can I define a color sequence for each image value? I have several images with values varying from 1 to 5, and I would like to assing a fixed color for each value (green for 1, yellow for 2...). I used somethink like: image(img,col=c(green,yellow,...)) but unfortunately whem I have absent values, the color that I defined for each values change. Thanks a lot, Miltinho Brazil PS : Merry Christmas!!! __ [[alternative HTML version deleted]] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
