Re: [R] Trouble about the interpretation of intercept in lm models

2009-01-13 Thread Thomas Lumley
On Tue, 13 Jan 2009, Stefano Leonardi wrote: Thanks for the answers. Still I am not totally convinced about the interpretation of intercept as a mean of fitted values for group belonging to first level of each factor (those having 0 in all columuns in matrix.models, except the first column) be

Re: [R] indexing question

2009-01-13 Thread Thomas Lumley
There are real examples; they are all fairly obscure. It can't be a big problem because the standard formal argument name for a data frame in modelling and graphics functions is 'data'. That's actually a more serious problem than the function called data() -- having local and global variable

Re: [R] polychoric correlation: issue with coefficient sign

2009-01-13 Thread Stas Kolenikov
The original Olsson's paper (http://www.citeulike.org/user/ctacmo/article/553309) did mention that the greatest biases and numeric problems were encountered when the two variables had opposite skewness. Your example is even more extreme: tetrachoric and polychoric correlations do not like zero coun

Re: [R] How to get legend outside of plot?

2009-01-13 Thread jimdare
I also have this problem! I would be great to hear a solution. Mike Williamson-9 wrote: > > I am creating a CDF plot function more user-friendly than any default > r > function. Depending upon the bimodality of the data (it is often > bimodal), > or any other strange data trends, the poi

Re: [R] Plotting activity by time and dates

2009-01-13 Thread Gabor Grothendieck
Since you have a time series of times this may not be the best application for zoo. Read R News 4/1 and try this: Lines <- "Spec_code DateTime Eptfus 6/4/03 22:44 Eptfus 6/4/03 22:44 Eptfus 6/9/03 21:59 Eptfus 6/10/03 3:24 Eptfus 6/13/03 0

Re: [R] Help with Plot/Legend

2009-01-13 Thread jimdare
Thanks Jim, What happens if I want one solid line and four custom lines ("92","11","12","62). I tried c("10","92","11","12","62) and it said that you can't use 0's. I also tried: ownlines<-c("92","11","12","62) lty=c(1,ownlines) which resulted in the same thing. jholtman wrote: > > You c

[R] Plotting activity by time and dates

2009-01-13 Thread Neotropical bat risk assessments
Hi all, As I understand the zoo package will aggregate dates and times, but unclear how to tackle this problem. I need to accomplish the following: 1. Generate a scatter plot of bat activity with dates on the X-axis and time on the Y-axis. include sunset and sunrise curves as an added part

Re: [R] referring to calls in functions

2009-01-13 Thread Charles C. Berry
On Tue, 13 Jan 2009, joseph.g.bo...@gsk.com wrote: The first program generates an error message and does not execute the regression of y on x. x<-1:10; y<-rnorm(10) + x; prac <- function( model, wghts ){ lm(model, weights = wghts) } prac(model = y~x, wghts = rep(1

[R] Significance levels of variance terms

2009-01-13 Thread Robert Schneider
I would like to be able to extract the significance levels (or standard errors) of the variance-covariance parameters in nlme objects (i.e. from the varClasses and/or corClasses). Is there a way to do it, or do I have to reverse the intervals function calculations ? Thanks. Rob

Re: [R] Testing for blank space in a plot

2009-01-13 Thread Gabor Grothendieck
See ?emptyspace in the plotrix package. On Tue, Jan 13, 2009 at 5:02 PM, John Fort wrote: > I have written code which puts text to the upper right of points on a plot. > Some of my point are very close together and the new text is writing over > the previous text. > > Has anyone written a clev

Re: [R] problem whit Geneland

2009-01-13 Thread Jombart, Thibaut J X
David Winsemius wrote: > help.search did not offer any clues. Using Baron's search page, I got > reference to r-help entries from 2004, but looking at the current > documentation , I see no such function. I am wondering if the name of the > function was changed in later versions of the package

[R] Testing for blank space in a plot

2009-01-13 Thread John Fort
I have written code which puts text to the upper right of points on a plot. Some of my point are very close together and the new text is writing over the previous text. Has anyone written a clever "smart-text" function that writes the text in a blank spot near the point (perhaps on the

Re: [R] polychoric correlation: issue with coefficient sign

2009-01-13 Thread John Fox
Dear Dorothee, > -Original Message- > From: r-help-boun...@r-project.org [mailto:r-help-boun...@r-project.org] On > Behalf Of Dorothee > Sent: January-13-09 8:49 PM > To: r-help@r-project.org > Subject: Re: [R] polychoric correlation: issue with coefficient sign > > > Thank you so much f

Re: [R] odfWeave: Error in matrixPaste(...)

2009-01-13 Thread Max Kuhn
> Hello all, > I try the follow test with an odf file. > > *INPUT: teste.odt* > >= > x <- matrix(rnorm(6), nc=2) > xst <- tableStyles(x, useRowNames = TRUE, header = NULL) > odfTable(x, styles=xst, colnames = NULL, useRowNames = TRUE) > @ Here is one issue: you are asking for the row names to be

[R] ftable to latex

2009-01-13 Thread Felipe Carrillo
Dear List: After reading some of the e-mails related to this topic I found one that converts a ftable to latex nicely. library(Hmisc) n=500 sex <- factor(sample(c("m","f"), n, rep=TRUE)) treatment <- factor(sample(c("Drug","Placebo"), n, rep=TRUE)) symptom <- factor(sample( c('H','S','G'), n

Re: [R] polychoric correlation: issue with coefficient sign

2009-01-13 Thread Dorothee
Thank you so much for all your answers! And sorry for being scarce on the details. My dataset has 12 variables (6 ordinal coded from 1 to 5, and 6 binary) and 384 cases without missing value. High values mean 'positive' attitude toward the object of study. I probably went too fast in my earlier i

Re: [R] Help with Plot/Legend

2009-01-13 Thread jim holtman
You can create your own dashed lines: lty The line type. Line types can either be specified as an integer (0=blank, 1=solid (default), 2=dashed, 3=dotted, 4=dotdash, 5=longdash, 6=twodash) or as one of the character strings "blank", "solid", "dashed", "dotted", "dotdash", "longdash", or "twodash",

[R] How to get legend outside of plot?

2009-01-13 Thread Mike Williamson
I am creating a CDF plot function more user-friendly than any default r function. Depending upon the bimodality of the data (it is often bimodal), or any other strange data trends, the points can end up gathering in just about any corner of the plot. So, when I add a legend, whether I choose

[R] Help with Plot/Legend

2009-01-13 Thread jimdare
Dear R-Users I have 2 questions: Firstly, If I create a matplot and legend for multiple vectors and then tag another vector on using matlines (e.g. a 'total' of all vectors), is there anyway to add the new line to the legend without recreating it? I have created the plot this way because I w

[R] referring to calls in functions

2009-01-13 Thread joseph . g . boyer
The first program generates an error message and does not execute the regression of y on x. x<-1:10; y<-rnorm(10) + x; prac <- function( model, wghts ){ lm(model, weights = wghts) } prac(model = y~x, wghts = rep(1, 10)) But the next program works: x<

Re: [R] Trouble about the interpretation of intercept in lm models

2009-01-13 Thread Stefano Leonardi
David Winsemius wrote: On Jan 13, 2009, at 5:54 PM, Stefano Leonardi wrote: David Winsemius wrote: It would be so *if* you had estimated a saturated model, but you did not. Your fit of Y|A values is adjusted for the B values. Thank you. What do you exactly mean by "Y|A values is adjusted fo

Re: [R] Trouble about the interpretation of intercept in lm models

2009-01-13 Thread David Winsemius
On Jan 13, 2009, at 5:54 PM, Stefano Leonardi wrote: David Winsemius wrote: It would be so *if* you had estimated a saturated model, but you did not. Your fit of Y|A values is adjusted for the B values. Thank you. What do you exactly mean by "Y|A values is adjusted for the B values"? Anot

Re: [R] Trouble about the interpretation of intercept in lm models

2009-01-13 Thread Stefano Leonardi
David Winsemius wrote: It would be so *if* you had estimated a saturated model, but you did not. Your fit of Y|A values is adjusted for the B values. Thank you. What do you exactly mean by "Y|A values is adjusted for the B values"? And Yes. It works! Using the interaction I got what I expe

Re: [R] Trouble about the interpretation of intercept in lm models

2009-01-13 Thread David Winsemius
On Jan 13, 2009, at 5:15 PM, Stefano Leonardi wrote: Peter Dalgaard wrote: Actually, notice that you are averaging identical values, so the "mean" in the tapply is slightly misleading. Notice also that the intercept may be defined even when _no_ observations have zero entries in the design m

Re: [R] Joining lists

2009-01-13 Thread Ted Harding
On 13-Jan-09 22:18:00, glenn wrote: > Very simple one sorry: > > How do I join 2 lists please > > Thanks > glenn c(list1,list2) Example: A<-list(a=1,b=2,c=3) B<-list(d=4,e=5,f=6) c(A,B) # $a # [1] 1 # $b # [1] 2 # $c # [1] 3 # $d # [1] 4 # $e # [1] 5 # $f # [1] 6 Ted. ---

Re: [R] inter-timeseries correlation or corrections

2009-01-13 Thread Tim Michelsen
Dear R-Users, I put a small sample data set and script. Aim: combine two partly overlapping series to one by prediction. Problem: only overlapping data points are predicted. Question: How do I predict data for rows 1-9 and 14-16? Thanks in advance for your advince, Tim ### CODE ### x <- read

[R] Joining lists

2009-01-13 Thread glenn
Very simple one sorry: How do I join 2 lists please Thanks glenn [[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/

Re: [R] Trouble about the interpretation of intercept in lm models

2009-01-13 Thread Stefano Leonardi
Peter Dalgaard wrote: Actually, notice that you are averaging identical values, so the "mean" in the tapply is slightly misleading. Notice also that the intercept may be defined even when _no_ observations have zero entries in the design matrix. This is the usual case in linear regression, for

[R] Re : Mixture Regression Lasso

2009-01-13 Thread Stella Sim
Dear list, I would like to run Lasso (least absolute shrinkage and selection operator) on a bimodal dataset. Can I do that using packages like lasso or lars ? Thanks in advance. Stella Sim DISCLAIMER:\ This email contains confidential informatio...{{dropped:11}}

[R] odfWeave: Error in matrixPaste(...)

2009-01-13 Thread Cleber Nogueira Borges
Hello all, I try the follow test with an odf file. *INPUT: teste.odt* >= x <- matrix(rnorm(6), nc=2) xst <- tableStyles(x, useRowNames = TRUE, header = NULL) odfTable(x, styles=xst, colnames = NULL, useRowNames = TRUE) @ and I get this error: *OUTPUT error:* Error: chunk 1 (label=teste) Err

Re: [R] Tables for journal/conference publications from within R

2009-01-13 Thread John Kane
xtable package and depending on what word processor you're using export as latex or html. Fancier approach is xtable combined with Sweave. --- On Tue, 1/13/09, Jason Rupert wrote: > From: Jason Rupert > Subject: [R] Tables for journal/conference publications from within R > To: r-help@r-pr

Re: [R] Comparing elements for equality

2009-01-13 Thread markleeds
Hi Harold: Below works on your data set but check it a lot because I am a little worried that I could have missed something. Hopefully someone can send a a little clearer way. dat <- data.frame(id = c(1,1,2,2,2), var1 = c(10,10,20,20,25), var2 = c('foo', 'foo', 'foo', 'foobar', 'foo')) print(

Re: [R] R2WinBUGS stopping execution

2009-01-13 Thread Uwe Ligges
Gregor Gorjanc wrote: hsl.gov.uk> writes: I'm running OpenBUGS model via the R2WinBUGS package interface, under Windows. Is it possible to terminate running models, short of using the Windows Task Manager to forcibly exit the program? If you use OpenBUGS, then I guess you can not since R

Re: [R] inter-timeseries correlation or corrections

2009-01-13 Thread Tim Michelsen
> look at zoo and ts, and it all depends on what you want to do. I researched a bit. I am looking at the application of different prediction methods (predict.lm etc.) for time series. I have two series of data. One contains measurements of 30 years. The other just 5 years. Both overla

Re: [R] Comparing elements for equality

2009-01-13 Thread Marc Schwartz
on 01/13/2009 01:17 PM Doran, Harold wrote: > Suppose I have a dataframe as follows: > > dat <- data.frame(id = c(1,1,2,2,2), var1 = c(10,10,20,20,25), var2 = > c('foo', 'foo', 'foo', 'foobar', 'foo')) > > Now, if I were to subset by id, such as: > >> subset(dat, id==1) > id var1 var2 > 1 1

Re: [R] Comparing elements for equality

2009-01-13 Thread Doran, Harold
Nice. I was thinking maybe length(table(x) == 1), but this works great > -Original Message- > From: Carlos J. Gil Bellosta [mailto:c...@datanalytics.com] > Sent: Tuesday, January 13, 2009 2:55 PM > To: Doran, Harold > Cc: r-help@r-project.org > Subject: Re: [R] Comparing elements for equa

Re: [R] Comparing elements for equality

2009-01-13 Thread Carlos J. Gil Bellosta
Hello, You could build your output dataframe along the following lines: foo <- function(x) length( unique(x) ) == 1 results <- data.frame( freq = tapply( dat$id, dat$id, length ), var1 = tapply( dat$var1, dat$id, foo ), var2 = tapply( dat$var2, dat$id, foo ) ) Best reg

Re: [R] If...while...or what else??

2009-01-13 Thread David Winsemius
On Jan 13, 2009, at 10:28 AM, Gabor Grothendieck wrote: If efficiency is not of concern then this is easy to understand: for(i in 1:5) for(j in 1:5) if (i < j) { ... } or?: > xx <- expand.grid(i=1:5, j=1:5) > subset(xx, i < j) i j 6 1 2 11 1 3 12 2 3 16 1 4 17 2 4 18 3 4 21 1 5 22 2 5

Re: [R] Memory Size & Allocation in R

2009-01-13 Thread Elizabeth Purdom
Hi Brigid, You will probably get some more informed answers in a bit, but to give you some quick things to try... There's no size limit to an object like you are referring to. When you're having problems with small objects or simple operations, it sounds like you've used up the memory for ru

[R] Comparing elements for equality

2009-01-13 Thread Doran, Harold
Suppose I have a dataframe as follows: dat <- data.frame(id = c(1,1,2,2,2), var1 = c(10,10,20,20,25), var2 = c('foo', 'foo', 'foo', 'foobar', 'foo')) Now, if I were to subset by id, such as: > subset(dat, id==1) id var1 var2 1 1 10 foo 2 1 10 foo I can see that the elements in var1 ar

Re: [R] Memory Size & Allocation in R

2009-01-13 Thread jim holtman
Try writing out the dataframe in smaller pieces. If you have 800K row and 18 columns, then this is about 14M items and if you have 8 bytes per items (assuming all numeric; more for character), this is 115MB of space that would probably be required to construct the output data (or more). Your erro

Re: [R] Using fortran code which call LAPACK subroutines

2009-01-13 Thread Charles C. Berry
On Tue, 13 Jan 2009, Matthieu Stigler wrote: Hello I'm trying to run a fortran code which use LAPACK subroutines. I think I should use some points shown in the manual 5.5 Creating shared objects but it is too technical for me :-(... Be sure to look over section 6, esp. 6.17 The headers f

Re: [R] curve fitting with given term

2009-01-13 Thread Ben Bolker
gregor rolshausen biologie.uni-freiburg.de> writes: > > ok. sorry for being blurry. > > I have x,y data, that probably fits a asymptotic curve (asymptote at N). > now I want to fit a curve onto the data, that gives me the N. therefore > I thought to fit an e-function, namely N(1-e^(y/x)) onto

Re: [R] R2WinBUGS stopping execution

2009-01-13 Thread Gregor Gorjanc
hsl.gov.uk> writes: > I'm running OpenBUGS model via the R2WinBUGS package interface, under > Windows. Is it possible to terminate running models, short of using the > Windows Task Manager to forcibly exit the program? If you use OpenBUGS, then I guess you can not since R2WinBUGS just passes

Re: [R] Bar plot between two different liniar models

2009-01-13 Thread Marc Schwartz
on 01/13/2009 08:43 AM joe1985 wrote: > Hello > > I have a problem that i ant make a Bar plot like the one i have tried to > illustrate below (made in paint); > http://www.nabble.com/file/p21437080/LG5%2Bgraf%2Bredigeret.jpg > > http://www.nabble.com/file/p21437080/LG5%2Bgraf%2Bredigeret.JPG >

Re: [R] interpolation to abscissa

2009-01-13 Thread David Winsemius
It's fairly clear from the documentation that approxfun() will not extrapolate. help.search("extrapolate") library(Hmisc) ?approxExtrap Some sort of minimization approach: > approxExtrap(x=c(0,5,10,15,20), y=c(16,45,77,101,125),xout=c(-4,0,4)) $x [1] -4 0 4 $y [1] -7.2 16.0 39.2 > approxE

Re: [R] Trouble about the interpretation of intercept in lm models

2009-01-13 Thread Marc Schwartz
on 01/13/2009 11:25 AM Peter Dalgaard wrote: > Marc Schwartz wrote: > >>> DF.fitted >> Y A B F.lm >> 1 21.86773 0 a 23.52957 >> 2 25.91822 0 a 23.52957 >> 3 20.82186 0 a 23.52957 >> 4 42.97640 1 a 36.18023 >> 5 36.64754 1 a 36.18023 >> 6 30.89766 1 a 36.18023 >> 7 47.43715 0 b

Re: [R] Trouble about the interpretation of intercept in lm models

2009-01-13 Thread Peter Dalgaard
Marc Schwartz wrote: > >> DF.fitted > Y A B F.lm > 1 21.86773 0 a 23.52957 > 2 25.91822 0 a 23.52957 > 3 20.82186 0 a 23.52957 > 4 42.97640 1 a 36.18023 > 5 36.64754 1 a 36.18023 > 6 30.89766 1 a 36.18023 > 7 47.43715 0 b 46.50615 > 8 48.69162 0 b 46.50615 > 9 47.87891 0 b

Re: [R] Summary of Total Object.Size in R Script

2009-01-13 Thread Prof Brian Ripley
On Tue, 13 Jan 2009, jim holtman wrote: That is certainly true because I have seen differences due to the sharing of values. I also look at what 'gc()' shows at the memory being used. Does this provide a reasonable estimate of the total space being used? Yes, but not just by your workspace,

[R] Memory Size & Allocation in R

2009-01-13 Thread Brigid Mooney
My apologies if this is a bit of a 'newbie' question. I am using R v 2.8.0 in Windows and am a bit confused about the memory size/allocation. A script I wrote faulted out with the error: "Error: cannot allocate vector of size 5.6 Mb" After this error, I still have: > memory.size() [1] 669.3517

Re: [R] meaning of asymmetric on help page for intersect

2009-01-13 Thread Christos Hatzis
... which is the same as setdiff(union(x, y), intersect(x, y)) -Christos > -Original Message- > From: r-help-boun...@r-project.org > [mailto:r-help-boun...@r-project.org] On Behalf Of > dav...@rhotrading.com > Sent: Tuesday, January 13, 2009 10:56 AM > To: Juliet Hannah; r-help@r-proj

Re: [R] Trouble about the interpretation of intercept in lm models

2009-01-13 Thread Marc Schwartz
on 01/13/2009 09:32 AM Stefano Leonardi wrote: > Hallo, > yesterday I was puzzled when I discovered that I > probabliy miss something in the interepretation of intercept > in two-way lm models. > > I thought that the intercept, using the default contr.treatment > contrasts, represents the mean of

[R] Cross-validation question

2009-01-13 Thread Geoffrey Zhu
Hello everyone, I have a data set that looks like the following: Year Days to the beginning of YearValue 1 30 100 1 60200 1..

[R] 2D kernel density estimation in non-contiguous space

2009-01-13 Thread SKÁLA Zdeněk
Dear all, is there in R a function to run 2D kernel density estimation (similar to e.g. 'kde2d()') in a space that is split internally? I think about a store floor space - basically a rectangle but divided by shelves etc. into "alleys". The "points" are people in the store and I would like to d

Re: [R] deviance in polr method

2009-01-13 Thread Prof Brian Ripley
On Tue, 13 Jan 2009, David Winsemius wrote: I remember have the same consternation using GLIM with binomial models on grouped and ungrouped data, but I was counseled by my betters only to consider differences in models. The differences in deviance are the same up to rounding error. 859.8018

Re: [R] Summary of Total Object.Size in R Script

2009-01-13 Thread jim holtman
That is certainly true because I have seen differences due to the sharing of values. I also look at what 'gc()' shows at the memory being used. Does this provide a reasonable estimate of the total space being used? On Tue, Jan 13, 2009 at 11:14 AM, Prof Brian Ripley wrote: > On Tue, 13 Jan 2009

Re: [R] meaning of asymmetric on help page for intersect

2009-01-13 Thread Carlos J. Gil Bellosta
Hello, The symmetric set difference of A and B is the set of elements in A or B but not in A intersection B, i.e., ( (A U B) \ (A intersection B) ). The asymmetric set difference of A and B is the set of elements of A except those in B, i.e., (A \ B). Best regards, Carlos J. Gil Bellosta http:/

Re: [R] meaning of asymmetric on help page for intersect

2009-01-13 Thread Duncan Murdoch
On 1/13/2009 10:41 AM, Juliet Hannah wrote: Sorry if this is a silly question. What does asymmetric refer to from ?intersect, and are there any aspects of the result that may be different from expected (reason for exclamation point) ? There are two definitions for a set difference: the symmetr

[R] multinomial analisys

2009-01-13 Thread costantino milanese
Hi, i'm an italian student that use for the first time the mailing list. I need an help to use a function for elaborate a multinomial logit analisys. I'm making a paper on the USA's commons and their way of organize their service. The various tipologies of service are 4: public, contracting in

Re: [R] interpolation to abscissa

2009-01-13 Thread e-letter
> > What is the problem that you are trying to solve? > >From the data I provided: x=c(0,5,10,15,20) y=c(16,45,77,101,125); I want to obtain the value of x when y=0. __ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE

Re: [R] meaning of asymmetric on help page for intersect

2009-01-13 Thread davidr
There is also a symmetric set difference = union(setdiff(x, y), setdiff(y, x)) denoted x \Delta y -- David -Original Message- From: r-help-boun...@r-project.org [mailto:r-help-boun...@r-project.org] On Behalf Of Juliet Hannah Sent: Tuesday, January 13, 2009 9:41 AM To: r-help@r-project.o

[R] PCA loadings differ vastly!

2009-01-13 Thread gregor rolshausen
hi, I have two questions: #first (SPSS vs. R): I just compared the output of different PCA routines in R (pca, prcomp, princomp) with results from SPSS. the loadings of the variables differ vastly! in SPSS the variables load constantly higher than in R. I made sure that both progr. use the cor

Re: [R] meaning of asymmetric on help page for intersect

2009-01-13 Thread Prof Brian Ripley
Because there is also a symmetric difference: see http://en.wikipedia.org/wiki/Symmetric_difference Sorry if this is a silly question. What does asymmetric refer to from ?intersect, and are there any aspects of the result that may be different from expected (reason for exclamation point) ? As

Re: [R] indexing question

2009-01-13 Thread Ista Zahn
On Tue, Jan 13, 2009 at 10:23 AM, jim holtman wrote: > How about this: > > > data(ToothGrowth) > > ls() > [1] "ToothGrowth" > > data <- function(x){invisible(NULL)} > > data(ToothGrowth) > > ls() > [1] "data" > > > Yep, that sure does cause a problem alright. Is it the case that that problems ari

Re: [R] Summary of Total Object.Size in R Script

2009-01-13 Thread Prof Brian Ripley
On Tue, 13 Jan 2009, jim holtman wrote: Here is a function I use to see how big the objects in my workspace are: Be careful with the caveats spelled out in ?object.size. Especially for character data such summations can be way off. my.ls <- + function (pos = 1, sorted = F) + { + .r

Re: [R] If...while...or what else??

2009-01-13 Thread Gabor Grothendieck
If efficiency is not of concern then this is easy to understand: for(i in 1:5) for(j in 1:5) if (i < j) { ... } On Tue, Jan 13, 2009 at 8:20 AM, Niccolò Bassani wrote: > Dear R users,I come to you with a quite silly question I think, but I hope > you can answer me... > That is, I've got some pr

Re: [R] deviance in polr method

2009-01-13 Thread David Winsemius
I remember have the same consternation using GLIM with binomial models on grouped and ungrouped data, but I was counseled by my betters only to consider differences in models. The differences in deviance are the same up to rounding error. > 859.8018 - 711.3479 [1] 148.4539 > 168.8-20.3 [1]

[R] Bar plot between two different liniar models

2009-01-13 Thread joe1985
Hello I have a problem that i ant make a Bar plot like the one i have tried to illustrate below (made in paint); http://www.nabble.com/file/p21437080/LG5%2Bgraf%2Bredigeret.jpg http://www.nabble.com/file/p21437080/LG5%2Bgraf%2Bredigeret.JPG LG5+graf+redigeret.JPG Where each line represents a

Re: [R] Message: No title available (pre-2.0.0 install?)

2009-01-13 Thread Duncan Murdoch
On 1/13/2009 9:01 AM, Powers, Randall - BLS wrote: Hello All, I'm actually the system administrator of a UNIX system where several users use R version 2.6.0. I have a user who is trying to use the SURVEY package, and when he does, he gets the message: survey' is not a valid package -- installe

Re: [R] basic sweave question

2009-01-13 Thread Ista Zahn
This doesn't address your original question, but you might want to look at using the Sweash.sh script available from http://lib.stat.cmu.edu/R/CRAN/contrib/extra/scripts/. Download the file, move it to /usr/local/bin (e.g., mv Sweave.sh /usr/local/bin) and make sure it's executable (chmod +x /usr/l

[R] meaning of asymmetric on help page for intersect

2009-01-13 Thread Juliet Hannah
Sorry if this is a silly question. What does asymmetric refer to from ?intersect, and are there any aspects of the result that may be different from expected (reason for exclamation point) ? As toy data, if needed, here are the examples from the help page. (x <- c(sort(sample(1:20, 9)),NA)) (y <-

Re: [R] indexing question

2009-01-13 Thread jim holtman
R does understand the class of the object so that it knows it should not try to call the dataframe 'data' if the function 'data' is being called. It is probably best to avoid what would be termed "reserved" words just to prevent mistakes in the future. How about calling them "Data"? On Tue, Jan

[R] Message: No title available (pre-2.0.0 install?)

2009-01-13 Thread Powers, Randall - BLS
Hello All, I'm actually the system administrator of a UNIX system where several users use R version 2.6.0. I have a user who is trying to use the SURVEY package, and when he does, he gets the message: survey' is not a valid package -- installed < 2.0.0? When I run the library() command, I get

[R] Trouble about the interpretation of intercept in lm models

2009-01-13 Thread Stefano Leonardi
Hallo, yesterday I was puzzled when I discovered that I probabliy miss something in the interepretation of intercept in two-way lm models. I thought that the intercept, using the default contr.treatment contrasts, represents the mean of the group of observations having zero in all column of the

Re: [R] interpolation to abscissa

2009-01-13 Thread jim holtman
approxfun returns a function; that is not an error message: > x=c(0,5,10,15,20) > y=c(16,45,77,101,125) > > approx(x,y,method="linear") $x [1] 0.000 0.4081633 0.8163265 1.2244898 1.6326531 2.0408163 2.4489796 2.8571429 3.2653061 [10] 3.6734694 4.0816327 4.4897959 4.8979592 5.306

Re: [R] temporal join

2009-01-13 Thread Jeff Ryan
The data.table package may be more in line with what you are after, but xts and zoo can also do what you need in this particular example: > a <- xts(c('a1','a2','a3'), timeBasedSeq(20090101/20090103)) > colnames(a) <- 'foo' > b <- xts(c('b1'), as.Date('2009-01-04')) > colnames(b) <- 'foo' > a

Re: [R] Summary of Total Object.Size in R Script

2009-01-13 Thread jim holtman
Here is a function I use to see how big the objects in my workspace are: > my.ls <- + function (pos = 1, sorted = F) + { + .result <- sapply(ls(pos = pos, all.names = TRUE), function(..x) object.size(eval(as.symbol(..x + if (sorted) { + .result <- rev(sort(.result)) + } +

Re: [R] indexing question

2009-01-13 Thread jim holtman
How about this: > data(ToothGrowth) > ls() [1] "ToothGrowth" > data <- function(x){invisible(NULL)} > data(ToothGrowth) > ls() [1] "data" > On Tue, Jan 13, 2009 at 9:53 AM, Ista Zahn wrote: > From: baptiste auguie > To: Dimitris Rizopoulos > Date: Tue, 13 Jan 2009 09:38:09 + > Subject: Re

Re: [R] If...while...or what else??

2009-01-13 Thread Ted Harding
On 13-Jan-09 13:20:54, Niccolò Bassani wrote: > Dear R users,I come to you with a quite silly question I think, > but I hope you can answer me... > That is, I've got some problems in using the if and while conditions > in a loop. > Substantially, I want to select rows in a dataset depending on an >

Re: [R] deviance in polr method

2009-01-13 Thread Prof Brian Ripley
Withut looking up your reference, are you not comparing grouped and ungrouped deviances? And polr() does not say anything about accepting a model (or not), only about the comparison between two models. 'Deviances' are in comparison with some 'saturated' model, and I would say that M&N are com

[R] Summary of Total Object.Size in R Script

2009-01-13 Thread Gundala Viswanath
Dear all, Is there a way we can find the total object.size of all the objects in our R script? The reason we want to do this because we want to know how much memory does our R script require overall. Rprofmem(), doesn't seem to do it. and Unix 'top' command is dynamic and it doesn't give the ex

Re: [R] If...while...or what else??

2009-01-13 Thread David Winsemius
Generally extraction of subsets is better done by subset(). myDat <- subset(dataset, subset= (variable==i) | (variable==j) ) #, or myDat <- dataset[which( (dataset$variable==i) | (dataset $variable==j) ), ] #note the need to add the name of the dataframe in the second version. Both of these

Re: [R] indexing question

2009-01-13 Thread Ista Zahn
From: baptiste auguie To: Dimitris Rizopoulos Date: Tue, 13 Jan 2009 09:38:09 + Subject: Re: [R] indexing question > you can also look at subset, > > >my.data.frame <- data.frame(a=rnorm(10), >> b=factor(sample(letters[1:4], 10, replace=T))) >>str(my.data.frame) >>my.

Re: [R] Extracting Hash via Vector

2009-01-13 Thread Gundala Viswanath
Thanks for your most reasonable reply, Henrique. - Gundala Viswanath Jakarta - Indonesia On Tue, Jan 13, 2009 at 8:01 PM, Henrique Dallazuanna wrote: > Try this: > > unlist(ifelse(q %in% names(x), x[q], NA)) > > On Tue, Jan 13, 2009 at 8:49 AM, Gundala Viswanath > wrote: >> >> Dear all, >> >>

Re: [R] Extracting Hash via Vector

2009-01-13 Thread Kenn Konstabel
Which R version do you have? I'm asking this because my 2.7.0 gives a different error message: > x[[q]] Error in x[[q]] : recursive indexing failed at level 2 Anyway, as Wacek said, x[[q]] is equivalent to x[["some"]][["more"]][["not_there"]] -- and you don't have an element called "more" in x[[

Re: [R] interpolation to abscissa

2009-01-13 Thread e-letter
On 08/01/2009, Greg Snow wrote: > If you want to just linearly interpolate, then use the functions approx or > approxfun from the stats package (one of those that is loaded by default). I have read the guide for approx and approxfun functions. Below is my data. x=c(0,5,10,15,20) y=c(16,45,77,101,

Re: [R] Tables for journal/conference publications from within R

2009-01-13 Thread ONKELINX, Thierry
Dear Jason, I would suggest xtable (from the xtable package) and LaTeX / Sweave. HTH, Thierry ir. Thierry Onkelinx Instituut voor natuur- en bosonderzoek / Research Institute for Nature and Forest Cel biometrie, met

Re: [R] problem whit Geneland

2009-01-13 Thread David Winsemius
help.search did not offer any clues. Using Baron's search page, I got reference to r-help entries from 2004, but looking at the current documentation , I see no such function. I am wondering if the name of the function was changed in later versions of the package and you are mixing old doc

[R] deviance in polr method

2009-01-13 Thread Gerard M. Keogh
Dear all, I've replicated the cheese tasting example on p175 of GLM's by McCullagh and Nelder. This is a 4 treatment (rows) by 9 ordinal response (cols) table. Here's my simple code: cheese library(MASS) options(contrasts = c("contr.treatment", "contr.poly")) y = c

[R] Tables for journal/conference publications from within R

2009-01-13 Thread Jason Rupert
Yeah.    addtable2plot in the plotrix is really close, but, working from within R, I would really like to be able format tables in such a way that they look like they are ready for journal or conference paper publication.    Is addtable2plot in the plotrix the right tool for that or are there o

Re: [R] If...while...or what else??

2009-01-13 Thread Duncan Murdoch
On 1/13/2009 8:20 AM, Niccolò Bassani wrote: Dear R users,I come to you with a quite silly question I think, but I hope you can answer me... That is, I've got some problems in using the if and while conditions in a loop. Substantially, I want to select rows in a dataset depending on an index vari

Re: [R] If...while...or what else??

2009-01-13 Thread jim holtman
Shouldn't your loop be: for (i in 1:4){ for (j in (i+1):5{ ... } } On Tue, Jan 13, 2009 at 8:20 AM, Niccolò Bassani wrote: > Dear R users,I come to you with a quite silly question I think, but I hope > you can answer me... > That is, I've got some problems in using the if and while cond

[R] If...while...or what else??

2009-01-13 Thread Niccolò Bassani
Dear R users,I come to you with a quite silly question I think, but I hope you can answer me... That is, I've got some problems in using the if and while conditions in a loop. Substantially, I want to select rows in a dataset depending on an index variable (suppose it ranges from 1 to 5), so to mak

Re: [R] problem whit Geneland

2009-01-13 Thread Christoph Heibl
Vincenzo, there is no function 'mcmcFmodel' in Geneland. Perhaps you intend to use 'MCMC'? See ?MCMC for a proper use. Additionally you might profit from reading the Geneland Manual on http://folk.uio.no/gillesg/Geneland/Geneland.html HTH Christoph ___

Re: [R] polychoric correlation: issue with coefficient sign

2009-01-13 Thread John Fox
Dear Jim and Dorothee, > -Original Message- > From: r-help-boun...@r-project.org [mailto:r-help-boun...@r-project.org] On > Behalf Of Jim Lemon > Sent: January-13-09 5:17 AM > To: Dorothee > Cc: r-help@r-project.org > Subject: Re: [R] polychoric correlation: issue with coefficient sign >

Re: [R] curve fitting with given term

2009-01-13 Thread gregor rolshausen
ok. sorry for being blurry. I have x,y data, that probably fits a asymptotic curve (asymptote at N). now I want to fit a curve onto the data, that gives me the N. therefore I thought to fit an e-function, namely N(1-e^(y/x)) onto the data and get the N from the fitted curves' equation. in the

[R] Using fortran code which call LAPACK subroutines

2009-01-13 Thread Matthieu Stigler
Hello I'm trying to run a fortran code which use LAPACK subroutines. I think I should use some points shown in the manual 5.5 Creating shared objects but it is too technical for me :-(... Could anyone help me for the procedure to do: -which part of the manual is relevant for this type of que

Re: [R] curve fitting with given term

2009-01-13 Thread Uwe Ligges
gregor rolshausen wrote: hello, I want to fit a curve to a simple x,y dataset - my problem is, that I want to fit it for the following term: n(1-e^x/y) - so I get the n constant for my data... Not an R problem in the first place, but the question arises what "n(1-e^x/y)" means, its is jus

Re: [R] Re ad a text file from a directory in which an R script finds itself

2009-01-13 Thread Gabor Grothendieck
This is an ugly hack but add this line to your sourced script: this.dir <- dirname(parent.frame(2)$ofile) It must be at top level, i.e. not in a function in the script. On Tue, Jan 13, 2009 at 6:53 AM, ppaarrkk wrote: > > Is it possible for an R script to read a text file, say, from the directo

Re: [R] Extracting Hash via Vector

2009-01-13 Thread Wacek Kusnierczyk
Wacek Kusnierczyk wrote: > > x[[q]] is equivalent to x[['some']][['more']][['not_there']]. since > x[['some']] is an atomic integer vector, it won't collaborate with > [['more']] > æsj, one more lousy statement. x[['some']] is an atomic *double* vector *with no element named 'more'*, hence x[

  1   2   >