Re: [R] simple data manipulation question

2009-12-10 Thread smu
for example: d = data.frame(gender=c(m,f,unkown), x=rnorm(300)) tapply(d$x,d$gender,mean) f munkown 0.0787628409 0.0940534765 -0.0005323276 regards, stefan On Wed, Dec 09, 2009 at 04:50:37PM -0800, dolar wrote: Hi there I have a dataframe of a whole

Re: [R] How to figure out which the version of split is used?

2009-12-10 Thread Patrick Connolly
On Wed, 09-Dec-2009 at 07:20PM -0600, Peng Yu wrote: | There are a number of functions that are dispatched to from split(). | | methods('split') | [1] split.data.frame split.Date split.defaultsplit.POSIXct | | Is there a way to figure out which of these variants is actually |

Re: [R] How to figure out which the version of split is used?

2009-12-10 Thread Karl Ove Hufthammer
On Wed, 9 Dec 2009 19:20:47 -0600 Peng Yu pengyu...@gmail.com wrote: Is there a way to figure out which of these variants is actually dispatched to when I call split? I know that if the argument is of the type data.frame, split.data.frame will be called? Is it the case that if the argument is

[R] different randomForest performance for same data

2009-12-10 Thread LWF
Hello, I came across a problem when building a randomForest model. Maybe someone can help me. I have a training- and a testdataset with a discrete response and ten predictors (numeric and factor variables). The two datasets are similar in terms of number of predictor, name of variables and

[R] Character String length

2009-12-10 Thread Ian Platt
Hi all, I have a script running on a Windows XP 32 bit OS under R 2.9.2 I am experiencing a character string limitation of 64 chars. Is this a general limitation of R or am I missing something? Any help appreciated. Regards, Ian -- View this message in context:

[R] Graph for pattern findings

2009-12-10 Thread Sunitap22
Hello I am searching for a graph for finding the patterns in writing of Authors. I have around 8 to 10 Authors for whom we have tabulated their writing times. for e.g the data is as follows: Author TimeofWriting A 2009-09-16:57:35:45 A

Re: [R] multidimensional point.in.polygon??

2009-12-10 Thread Keith Jewell
Hi, Doing some more reading, I think the problem is easier because the hull is convex. Then an algorithm for testing points might be: a) Define the convex hull as a set of planes (simplexes). [as returned by convhulln!!] b) Define one point, i, known to be interior [e.g. mean of all

[R] [R-pkgs] Multivariate ECDFs

2009-12-10 Thread Charlotte Maia
Hey R people, I have just put a package on CRAN, mecdf 0.2.1. It computes multivariate ECDFs. i.e. Estimates (or perhaps I should say evaluates) a multivariate cumulative distribution function, using data, without any assumptions per se. Plus contrary to my own advise, the vignette contains some

Re: [R] Assigning variables into an environment.

2009-12-10 Thread Duncan Murdoch
On 09/12/2009 11:29 PM, hadley wickham wrote: On Wed, Dec 9, 2009 at 9:43 PM, Rolf Turner r.tur...@auckland.ac.nz wrote: I am working with a somewhat complicated structure in which I need to deal with a function that takes ``basic'' arguments and also depends on a number of parameters which

Re: [R] Character String length

2009-12-10 Thread Duncan Murdoch
On 10/12/2009 5:05 AM, Ian Platt wrote: Hi all, I have a script running on a Windows XP 32 bit OS under R 2.9.2 I am experiencing a character string limitation of 64 chars. Is this a general limitation of R or am I missing something? You are missing something. There are line length limits on

[R] Odp: Character String length

2009-12-10 Thread Petr PIKAL
Hi r-help-boun...@r-project.org napsal dne 10.12.2009 11:05:15: Hi all, I have a script running on a Windows XP 32 bit OS under R 2.9.2 I am experiencing a character string limitation of 64 chars. Is this a general limitation of R or am I missing something? Here is a snippet from

Re: [R] multidimensional point.in.polygon??

2009-12-10 Thread baptiste auguie
Hi, Regarding your proposed algorithm (looks like it is indeed the correct way to do it), there seem to be a somewhat similar Matlab implementation, http://www.mathworks.com/matlabcentral/fileexchange/10226-inhull It should be possible to port this to R (you might want to check what to do with

[R] plm – tests of poolability – error: insu fficient number of observations

2009-12-10 Thread Cecilia Carmo
Hi everyone! I’m running the pooltest in plm package, like this pooltest(cstfin12~lmaccdiscrz+lcobjur+lliq+lcollateral+ldimensao, data = dados3, model = within) But I got the following error: Error in FUN(X[[1L]], ...) : insufficient number of observations My data is an unbalanced panel

[R] obtain intermediate estimate using optim

2009-12-10 Thread Lisanne Sanders
Hi, Currently I am trying to solve a minimization problem using optim as method Nelder-Mead. However, Neldel-Mead needs many iterations until it finally converges. I have set $control.trace and $control.report such that I can see the value of the function at each iteration. I do see that I

Re: [R] plm ? tests of poolability ? error: insufficient number

2009-12-10 Thread Millo Giovanni
Hello Cecilia, nice hearing from you again. I must restate a couple of my old hints, though ;^) 1) please always put the authors c/c, as we are not guaranteed to browse through the r-help every day 2) please provide reproducible examples. As example(pooltest) keeps working fine, as do some

[R] updating specific arguments of formula

2009-12-10 Thread Moreno Ignazio Coco
-- The University of Edinburgh is a charitable body, registered in Scotland, with registration number SC005336. __ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide

[R] updating specific arguments of formula

2009-12-10 Thread Moreno Ignazio Coco
-- The University of Edinburgh is a charitable body, registered in Scotland, with registration number SC005336. __ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide

[R] updating specific arguments of formula

2009-12-10 Thread Moreno Ignazio Coco
-- The University of Edinburgh is a charitable body, registered in Scotland, with registration number SC005336. __ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide

[R] how to set column width of terminal output?

2009-12-10 Thread Michael Olberg
Hi, I am new to this list and my question may be trivial, I did however not find an answer to it using the help.search or RSiteSearch features of R. This is my question: R seems to break lines of terminal output at a column which is independent of how wide I have made my terminal. I would

Re: [R] multidimensional point.in.polygon??

2009-12-10 Thread Duncan Murdoch
On 10/12/2009 5:15 AM, Keith Jewell wrote: Hi, Doing some more reading, I think the problem is easier because the hull is convex. Then an algorithm for testing points might be: a) Define the convex hull as a set of planes (simplexes). [as returned by convhulln!!] b) Define one point, i,

Re: [R] How to make the assignment in a for-loop not affect variables outside the loop?

2009-12-10 Thread John Fox
Try n=10 b=1 local( for(i in 1:n) { n=3 print(n) b - b*i } ) print(n) print(b) or n=10 b=1 local( for(i in 1:n) { n=3 print(n) assign(b, b*i, env=.GlobalEnv)

Re: [R] how to set column width of terminal output?

2009-12-10 Thread Prof Brian Ripley
On Thu, 10 Dec 2009, Michael Olberg wrote: Hi, I am new to this list and my question may be trivial, But the answer depends on the 'at a minimum' information requested in the posting guide. My comments below only apply to the standard Unix-alike R and Rterm.exe. Many other front-ends do

[R] updating arguments of formulae

2009-12-10 Thread Moreno Ignazio Coco
Dear R-Community, I am relatively new with R, so sorry for things which for you might be obvious... I am trying to automatically update lmer formulae. the variables of the model are: depM= my dependent measure Sb2= a random factor OS = a predictor VR= another predictor So, I am building

[R] Get rid of automatic title from Anova plots

2009-12-10 Thread Joel Fürstenberg-Hägg
Hi all, I'm having a problem when putting the four plots (Residuals vs Fitted, Normal Q-Q, Scale - Location, and Residuals vs Leverage) from an Anova using plot(aov()) into a pdf. A string aov(df[,i] ~ cat)) is added as the main title, so when I use mtext() the two titles are overlapping.

[R] How to analyse a scale from 0 to 5

2009-12-10 Thread Leah Williams
Hello, This may seem like a simple question but I am struggling to answer it. I wish to discover if there is statistical significance between three different habitats. I have used a variety of measurements which can be analysed easily, i.e. GLM for height, distance and circumference of

[R] Need explaining to the ASH code in MASS

2009-12-10 Thread Saji Ren
Hi,everyone: In MASS chapter 5, the codes that yield a ASH for the duration data is read below: breaks - seq(0, 5.9, 0.1) counts - numeric(length(breaks)) for(i in (0:4)) counts[i+(1:55)] - counts[i+(1:55)] + rep(hist(duration, breaks=0.1*i + seq(0, 5.5, 0.5), prob=TRUE,

[R] plotting with varying dot sizes

2009-12-10 Thread servet ahmet çizmeli
Dear all, I am trying to plot on a spatial map the punctual measurements of the data located in the file (https://opengeo.metu.edu.tr/test.csv). I'd like to have the dots in some way proportional to the magnitudes of the measurements. I have difficulties with the code given below: The dot sizes

[R] heatmap/image from csv data

2009-12-10 Thread Liat
Hi all, I'm trying to use heat.map to display some data. The data is originally in csv format and when I read it in R using read.table I get: a b c d e 1 A 1 1 1 1 2 B 1 0 1 1 3 C 0 1 0 1 4 D 1 1 1 0 5 E 1 0 0 0 The problem is, that for heatmap I need a numerical matrix. When using data.matrix

[R] question about centroid-linkage (cluster analysis)

2009-12-10 Thread james.foadi
Dear R community, I would be greatful if somebody could shed light on the following. I have created a set of 6 points to check how centroid agglomeration works in cluster analysis: Y - data.frame(x=c(-1,1,1,-1,10,12),y=c(1,1,-1,-1,0,0)) It is quite intuitive to understand that the last

[R] Problem with coeftest using Newey West estimator

2009-12-10 Thread Bender, Marina
Hi, I want to calculate the t- and p-values for a linear model using the Newey West estimator. I tried this Code and it usually worked just fine: oberlm - lm(DYH ~ BIP + Infl + EOil, data=HU_H) coeftest(oberlm, NeweyWest(oberlm, lag=2)) t test of coefficients:

[R] Hazard ratio

2009-12-10 Thread Ashta
Hi all, I want to calculate hazard ratio within each covariate Example, one covariate has 3 classes (1,2 and 3) and x2 has 2 classes I want to compare the relative risk ratio within each class of the covariate. How do I get this result ? . The other question is that how do I interpret

Re: [R] Hazard ratio

2009-12-10 Thread David Winsemius
On Dec 10, 2009, at 8:33 AM, Ashta wrote: Hi all, I want to calculate hazard ratio within each covariate Example, one covariate has 3 classes (1,2 and 3) and x2 has 2 classes I want to compare the relative risk ratio within each class of the covariate. How do I get this result ? .

Re: [R] updating arguments of formulae

2009-12-10 Thread Meyners, Michael, LAUSANNE, AppliedMathematics
Moreno, I leave the discussion on the mixed models to others (you might consider the SIG group on mixed models as well for this), but try a few hints to make your code more accessible: * The . in updating a formula is substituted with the respective old formula (depending on the side), but is

Re: [R] Have you used RGoogleDocs and RGoogleData?

2009-12-10 Thread Tal Galili
Hello there Farrel, I see no one is answering you yet, and I don't have answers to give you, but I did see this thread: http://tolstoy.newcastle.edu.au/R/e5/help/08/12/10204.html http://tolstoy.newcastle.edu.au/R/e5/help/08/12/10204.htmlThat might be of use to you. Best, Tal

Re: [R] Hazard ratio

2009-12-10 Thread Ashta
David, Thank you very much for your response. I fitted the model as factor instead of numeric. coxfit1 - coxph(Surv(sdat$time, sdat$cens)~factor(y1)+factor(x2) coef exp(coef) se(coef) z Pr(|z|) factor(y1)2 0.036161 1.036822 0.083921 0.431

[R] problem with data processing in R

2009-12-10 Thread Maxim
Hi, I'm stuck with parsing data into R for heatmap representation. The data looks like: 1 id1 x1 x2 x3 x20 2 id1 x1 x2 x3 x20 3 id1 x1 x2 x3 x20 4 id1 x1 x2 x3 x20 . 348 id2 x1 x2 x3 x20 349 id2 x1 x2 x3 x20 350 id2 x1 x2 x3 x20 351 id2 x1 x2

Re: [R] Hazard ratio

2009-12-10 Thread R Help
Yes, in this case it's comparing to the value '1'. In general with factors it's comparing to whatever level is missing. Sam On Thu, Dec 10, 2009 at 10:40 AM, Ashta sewa...@gmail.com wrote: David, Thank you very much for your response. I fitted the model as  factor instead of numeric.

[R] How to scale a histogram

2009-12-10 Thread terry johnson
If I want to scale a histogram ie multiply by a constant how would I do this? Thanks [[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

Re: [R] Have you used RGoogleDocs and RGoogleData?

2009-12-10 Thread Farrel Buchinsky
Thank you Adrian. Your response was very informative. ?downloadDocument filled me with excitement untill I read, If you try to download a spreadsheet with multiple worksheets into a 'csv' or 'tsv' format, only the first worksheet will be downloaded. So now there is a convenient fast way to read

Re: [R] heatmap/image from csv data

2009-12-10 Thread David Winsemius
On Dec 10, 2009, at 8:25 AM, Liat wrote: Hi all, I'm trying to use heat.map to display some data. The data is originally in csv format and when I read it in R using read.table I get: a b c d e 1 A 1 1 1 1 2 B 1 0 1 1 3 C 0 1 0 1 4 D 1 1 1 0 5 E 1 0 0 0 The problem is, that for heatmap I need

[R] Help with missing values in the dataset

2009-12-10 Thread Venkatesh.P
Dear all, I am facing problem with inserting the scheduled day of Observation in the dataset. In the dataset I have only  relative time (table 1) and not scheduled day of observation (day 1, 4, 8, 15, 22, 29, 36, 43). I would appreciate if any one could suggest me how to proceed. Eg: Table

[R] Aggregating date for barplot

2009-12-10 Thread Loris Bennett
Hi, As a first exercise with R, I am misusing it purely as a plotting tool. I have some data that look like this: date group deptcputime 2008/01 A phys124 2008/01 B phys214 2008/01 C chem281 2008/02 A phys092 2008/02 B phys

[R] Problem with coeftest using Newey West estimator

2009-12-10 Thread Bender, Marina
Hi, I want to calculate the t- and p-values for a linear model using the Newey West estimator. I tried this Code and it usually worked just fine: oberlm - lm(DYH ~ BIP + Infl + EOil, data=HU_H) coeftest(oberlm, NeweyWest(oberlm, lag=2)) t test of coefficients: Estimate Std.

Re: [R] Have you used RGoogleDocs and RGoogleData?

2009-12-10 Thread Adrian Dragulescu
Farrel, Please read the manuals. On the RGoogleData package page you can read: The package provides R access to Google services through the Google supported Java API. [...] A package with very similar functionality is maintained by Duncan Temple Lang at

Re: [R] How to scale a histogram

2009-12-10 Thread S Devriese
On 12/10/2009 04:01 PM, terry johnson wrote: If I want to scale a histogram ie multiply by a constant how would I do this? Thanks [[alternative HTML version deleted]] __ R-help@r-project.org mailing list

Re: [R] heatmap/image from csv data

2009-12-10 Thread Liat
I have looked at the help for data.matrix. But didn't find a solution. data.matrix only gets two arguments the data and a logical rownames.force - I have tried to change this logical to TRUE but that doesn't help. Any advice would be greatly appreciated. Thanks!! Liat wrote: Hi all, I'm

Re: [R] simple data manipulation question

2009-12-10 Thread Felipe Carrillo
Or like this: d = data.frame(gender=c(m,f,unkown), x=rnorm(300)) ddply(d,gender,summarise,mean=mean(x)) Felipe D. Carrillo Supervisory Fishery Biologist Department of the Interior US Fish Wildlife Service California, USA --- On Thu, 12/10/09, smu m...@z107.de wrote: From: smu

[R] barplot and cumulative curve using ggplot2 layers

2009-12-10 Thread Sunitap22
Hello My dataset is as follows: jobno recruits 1100 18 1200 1 1850 5 2100 190 2789 25 3000 1 .. .. the dataset has 130 rows I want to plot barplot from left side and cumulative curve from

Re: [R] heatmap/image from csv data

2009-12-10 Thread David Winsemius
On Dec 10, 2009, at 10:19 AM, Liat wrote: I have looked at the help for data.matrix. But didn't find a solution. data.matrix only gets two arguments the data and a logical rownames.force - I have tried to change this logical to TRUE but that doesn't help. Any advice would be greatly

Re: [R] Have you used RGoogleDocs and RGoogleData?

2009-12-10 Thread Adrian Dragulescu
I will try to have something in place by Monday to allow you to download a specific sheet not default to the first. I will let you know. Adrian On Thu, 10 Dec 2009, Farrel Buchinsky wrote: Thank you Adrian. Your response was very informative. ?downloadDocument filled me with excitement

[R] Graph for finding patterns

2009-12-10 Thread Sunitap22
Hello I am searching for a graph for finding the patterns in writing of Authors. I have around 8 to 10 Authors for whom we have tabulated their writing times. for e.g the data is as follows: Author TimeofWriting A 2009-09-16:57:35:45 A

Re: [R] Fwd: Evaluating a function within a pre-defined environment?

2009-12-10 Thread hadley wickham
On Wed, Dec 9, 2009 at 4:48 PM, David Reiss dre...@systemsbiology.org wrote: Ideally I would like to be able to use the function f (in my example) as-is, without having to designate the environment as an argument, or to otherwise have to use e$x in the function body. e - new.env() e$x - 3 f -

[R] Help with beanplot fromatting

2009-12-10 Thread James Widman
Dear Helpful R Users, I am graphing some data using the beanplot, but I am having trouble getting the output I desire. I have five tanks (A-E) and 2 groups for each tank grp1 or grp2, except tank C where there is only grp1. (I only changed the grouprep to C grp1 for the example) When I plot

Re: [R] Help with missing values in the dataset

2009-12-10 Thread Nikhil Kaza
?merge use all=L On 10 Dec 2009, at 6:06AM, Venkatesh.P wrote: Dear all, I am facing problem with inserting the scheduled day of Observation in the dataset. In the dataset I have only relative time (table 1) and not scheduled day of observation (day 1, 4, 8, 15, 22, 29, 36, 43). I would

[R] Statistical question and implementation

2009-12-10 Thread Santosh
Dear R/Statistics-gurus! I tried to find answer to my hypothetical question and in vain. Sorry, I don't have a dataset that fits into this hypothetical question and pardon me if my explanations/use of statistical terms are not accurate. It does sound a weird question, but I want to rule out that

[R] global variables in a function

2009-12-10 Thread Keith Jones
Y'all, I would like to have most of the variables in my function to be global instead of local. I have not found any references that tell me now to do that. If I have missed a reference please excuse me and tell me what I have missed. Thanks, Keith Jones

[R] Avoid for-loop in creating data.frames

2009-12-10 Thread Andreas Wittmann
Dear R-users, after several tries with lapply and searching the mailing list, i want to ask, wheter and how it is possibly to avoid the for-loop in the following piece of code? set2-as.data.frame(matrix(rnorm(9),ncol=3)) set2[1,1] - NA set2[3,2] - NA set2[2,1] - NA dimnames(set2)[1] -

Re: [R] global variables in a function

2009-12-10 Thread Gabor Grothendieck
I think you are looking for a macro facility. See defmacro in gtools which is based on Thomas Lumley's function of the same name whose article you can find in back issues of R News. On Thu, Dec 10, 2009 at 11:00 AM, Keith Jones keit...@keithljelp.com wrote: Y'all, I would like to have most

Re: [R] Avoid for-loop in creating data.frames

2009-12-10 Thread baptiste auguie
Hi, Is the following close enough? apply(set2, 2, function(x) x[is.na(x)]) HTH, baptiste 2009/12/10 Andreas Wittmann andreas_wittm...@gmx.de: Dear R-users, after several tries with lapply and searching the mailing list, i want to ask, wheter and how it is possibly to avoid the for-loop in

[R] About R memory management?

2009-12-10 Thread Peng Yu
I'm wondering where I can find the detailed descriptions on R memory management. Understanding this could help me understand the runtime of R program. For example, depending on how memory is allocated (either allocate a chuck of memory that is more than necessary for the current use, or allocate

Re: [R] Avoid for-loop in creating data.frames

2009-12-10 Thread Andreas Wittmann
Hi babtiste, thank you very much for your fast answer. your solution is very good, but i also need the dimnames as in the for-loop for further calculations. best regards Andreas baptiste auguie wrote: Hi, Is the following close enough? apply(set2, 2, function(x) x[is.na(x)]) HTH,

Re: [R] Avoid for-loop in creating data.frames

2009-12-10 Thread Henrique Dallazuanna
Try this: lapply(1:ncol(set2), function(idx)set2[is.na(set2[,idx]),idx, drop = FALSE]) On Thu, Dec 10, 2009 at 2:33 PM, Andreas Wittmann andreas_wittm...@gmx.de wrote: Hi babtiste, thank you very much for your fast answer. your solution is very good, but i also need the dimnames as in the

Re: [R] Statistical question and implementation

2009-12-10 Thread David Winsemius
On Dec 10, 2009, at 10:59 AM, Santosh wrote: Dear R/Statistics-gurus! I tried to find answer to my hypothetical question and in vain. Sorry, I don't have a dataset that fits into this hypothetical question and pardon me if my explanations/use of statistical terms are not accurate. It

Re: [R] Have you used RGoogleDocs and RGoogleData?

2009-12-10 Thread Farrel Buchinsky
That would be fantastic. How about an option whereby all the worksheets are downloaded and read into dataframes and appear as a a list of dataframes? Farrel Buchinsky Google Voice Tel: (412) 567-7870 On Thu, Dec 10, 2009 at 10:38, Adrian Dragulescu adria...@eskimo.comwrote: I will try to

[R] PH Model assumption

2009-12-10 Thread Ashta
Hi all, I was trying to test the assumption of proportional hazards assumption, I used the cox.zph function cox.zph(coxfit6) Results are: rhochisqp x1 -0.03961.397 2.37e-01 x2 0.11079.715 1.83e-03 x3 -0.08857.743

Re: [R] Assigning variables into an environment.

2009-12-10 Thread Bert Gunter
VR's S PROGRAMMING has a lucid (to me) discussion of environments/lexical scoping starting on p. 63. I am unable to judge whether it is sufficiently complete to satisfy Rolf's (or others') needs, however. Bert Gunter Genentech Nonclinical Biostatistics -Original Message- From:

Re: [R] About R memory management?

2009-12-10 Thread Henrik Bengtsson
Related... Rule of thumb: Pre-allocate your object of the *correct* data type, if you know the final dimensions. /Henrik On Thu, Dec 10, 2009 at 8:26 AM, Peng Yu pengyu...@gmail.com wrote: I'm wondering where I can find the detailed descriptions on R memory management. Understanding this

Re: [R] About R memory management?

2009-12-10 Thread hadley wickham
For the case below, you don't need to know anything about how R manages memory, but you do need to understand basic concepts algorithmic complexity. You might find The Algorithm Design Manual, http://www.amazon.com/dp/1848000693, a good start. Hadley On Thu, Dec 10, 2009 at 10:26 AM, Peng Yu

Re: [R] About R memory management?

2009-12-10 Thread Peng Yu
I have a situation that I can not predict the final result's dimension. In C++, I believe that the class valarray could preallocate some memory than it is actually needed (maybe 2 times more). The runtime for a C++ equivalent (using append) to the R code would still be C*n, where C is a constant

Re: [R] PH Model assumption

2009-12-10 Thread David Winsemius
On Dec 10, 2009, at 12:11 PM, Ashta wrote: Hi all, I was trying to test the assumption of proportional hazards assumption, I used the cox.zph function cox.zph(coxfit6) Results are: rhochisqp x1 -0.03961.397 2.37e-01 x2 0.11079.715

[R] incorrect multiple outputs

2009-12-10 Thread biscuit
HI, I'm having trouble with a piece of Rscript which keeps outputting incorrectly. it's something like this: the code reads in from a file which contains (reformated) input file-read.table(file=input_file.txt,sep=\t)[,c(1,3:5)] file.rows- c(nrow(file)/288) # input_file.txt contains 288

Re: [R] updating arguments of formulae

2009-12-10 Thread Moreno Ignazio Coco
Michael, Thanks a lot for your reply, I have now understood how to fiddle around with the formulae updates...my question (see my previous e-mail where I was sketching this problem out) about LME models remains open... whether: depM ~ (1 |Sb2) + OS + (1 + OS | Sb2) + VR + (1 + VR | Sb2) is

[R] mutlidimensional in.convex.hull (was multidimensional point.in.polygon??)

2009-12-10 Thread Keith Jewell
Hi All (especially Duncan and Baptiste), Summary (of lengthy bits below): I will have a convex hull in multiple (3 to 10) dimensions derived from many (thousands) of points by geometry::convhulln. I will need to categorise other 'test' points as inside/outside that convex hull . e.g. given:

Re: [R] plotting with varying dot sizes

2009-12-10 Thread Greg Snow
The symbols function may work better than plot for this situation. -- Gregory (Greg) L. Snow Ph.D. Statistical Data Center Intermountain Healthcare greg.s...@imail.org 801.408.8111 -Original Message- From: r-help-boun...@r-project.org [mailto:r-help-boun...@r- project.org] On Behalf

Re: [R] simple data manipulation question

2009-12-10 Thread Greg Snow
?aggregate -- Gregory (Greg) L. Snow Ph.D. Statistical Data Center Intermountain Healthcare greg.s...@imail.org 801.408.8111 -Original Message- From: r-help-boun...@r-project.org [mailto:r-help-boun...@r- project.org] On Behalf Of dolar Sent: Wednesday, December 09, 2009 5:51 PM

[R] option for multi thread or multi core machines

2009-12-10 Thread Anderson, Chris
I notice that R basic installation does not take advantage of multi-thread or multi-core processors. Is there an option for multi-threaded processors? I currently run all of my analysis on thinkpad laptop and most processing is very quick, however, when I run stepAIC with interaction terms it

Re: [R] simple data manipulation question

2009-12-10 Thread Bert Gunter
... or perhaps simpler is ?ave Bert Gunter Genentech Nonclinical Biostatistics -Original Message- From: r-help-boun...@r-project.org [mailto:r-help-boun...@r-project.org] On Behalf Of Greg Snow Sent: Thursday, December 10, 2009 9:48 AM To: dolar; r-help@r-project.org Subject: Re: [R]

Re: [R] [R-pkgs] survey package (3.18)

2009-12-10 Thread Brad Fulton
Does the survey package have a function similar to prop.test() Or is there a way to use svyciprop() to perform a Chi-square test to see if the difference in proportions is significant? I'm comparing liberal congregations with conservative congregations in their sponsorship of HIV/AIDS programs.

Re: [R] simple data manipulation question

2009-12-10 Thread Bert Gunter
Scratch my suggestion. You have a data frame of variables which is what aggregate() is for. Bert Gunter Genentech Nonclinical Biostatistics -Original Message- From: r-help-boun...@r-project.org [mailto:r-help-boun...@r-project.org] On Behalf Of Greg Snow Sent: Thursday, December 10,

[R] Moving Averages in ggplot2

2009-12-10 Thread fruminator
Hello all, Have some time series data stored in a data.frame, and am plotting it with ggplot2 (which is totally awesome). I have explored the documentation and mailing list archives, and I can't see any way to plot a 'smoother' that is just the K-step moving average. For example, imagine I had

Re: [R] Need help to forecasting the data of the time series .

2009-12-10 Thread stephen's mailinglist account
On Thu, Dec 10, 2009 at 12:34 AM, nivas sbma...@gmail.com wrote: Hi, This is the time series data collected from 2001 to 2008 by every month.so,there are 96 entries.I have done basic statistics.I need to find a model fitted to forecast this data.This is the mixedpaper collection for

Re: [R] global variables in a function

2009-12-10 Thread Gray Calhoun
Hi Keith, A more specific example of what you're looking for might be helpful--ie do you want to read global variables or set them? You probably want to look at environments and closures; ?- and ?assign are good starting points (the latter has an example of Global Assignment within a function)

Re: [R] Help with beanplot fromatting

2009-12-10 Thread James Widman
Sorry for the previous error. Dear Helpful R Users, I am graphing some data using the beanplot, but I am having trouble getting the output I desire. I have five tanks (A-E) and 2 groups for each tank grp1 or grp2, except tank C where there is only grp1. (I only changed the grouprep to C grp1

Re: [R] .Rhistory in R.app

2009-12-10 Thread Maria Gouskova
Renaming the .Rhistory file to .Rosxhistory didn't solve the problem for me--the file is still empty. And I have confirmed that it is a problem specific to R.app--running R from Terminal works fine, adding records to the existing .Rhistory file. Too bad there is no apparent workaround. Thanks,

Re: [R] How to scale a histogram

2009-12-10 Thread Rolf Turner
On 11/12/2009, at 4:01 AM, terry johnson wrote: If I want to scale a histogram ie multiply by a constant how would I do this? Thanks This question is pretty vague. Please read the posting guide. If you want to rescale the y-axis you could do something like: set.seed(333) # Only half

Re: [R] .Rhistory in R.app

2009-12-10 Thread Rolf Turner
On 11/12/2009, at 8:30 AM, Maria Gouskova wrote: Renaming the .Rhistory file to .Rosxhistory didn't solve the problem for me--the file is still empty. And I have confirmed that it is a problem specific to R.app--running R from Terminal works fine, adding records to the existing .Rhistory file.

Re: [R] Assigning variables into an environment.

2009-12-10 Thread Rolf Turner
Thanks to Gabor Grothendieck, Duncan Murdoch, Hadley Wickham, and Bert Gunter for their useful input. I'm beginning to get a glimmering of understanding, and I think I now have enough to make some progress. cheers, Rolf Turner

[R] vector help

2009-12-10 Thread Ramya
I have tow vectors one is the subset of another x is a subset of X Both are vectors with n elements X[X %in% x] would give me x again rite because it is a subset but i want all those are not in x from X. X[which(X != x)] should this do that Thanks Ramya -- View this message in context:

Re: [R] How to figure out which the version of split is used?

2009-12-10 Thread Peng Yu
On Thu, Dec 10, 2009 at 3:46 AM, Karl Ove Hufthammer k...@huftis.org wrote: On Wed, 9 Dec 2009 19:20:47 -0600 Peng Yu pengyu...@gmail.com wrote: Is there a way to figure out which of these variants is actually dispatched to when I call split? I know that if the argument is of the type

Re: [R] Moving Averages in ggplot2

2009-12-10 Thread Gabor Grothendieck
You probably want to use a time series package for this. There are plotting facilities specifically aimed at time series in zoo, xts, quantmod, timeSeries and latticeExtra. We illustrate with zoo which has classic graphics and lattice graphics methods: devAskNewPage(TRUE) library(zoo)

[R] MLE for a t distribution

2009-12-10 Thread Barbara Gonzalez
Given X1,...,Xn ~ t_k(mu,sigma) student t distribution with k degrees of freedom, mean mu and standard deviation sigma, I want to obtain the MLEs of the three parameters (mu, sigma and k). When I try traditional optimization techniques I don't find the MLEs. Usually I just get k-infty. Does

[R] Is there a variant of findInterval() such that v[i[j]] x[j] = v[i[j] + 1]?

2009-12-10 Thread Peng Yu
In findInterval's help page, it says 'v[i[j]] = x[j] v[i[j] + 1]'. I'm wondering if there is a variant of it such that 'v[i[j]] x[j] = v[i[j] + 1]'. __ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the

[R] non-linear regression

2009-12-10 Thread AneSR
I have a non-linear regression with 8 parameters to solve however it does not converge ... easily solves the excel ... including the initial estimates used in the R were found in the excel ... Another question is how to establish the increments of R by the parameters in the search ..

[R] Need help creating multiple datasets using loops or vectorization

2009-12-10 Thread Anderson, Chris
I am trying to create multiple dataset by group like the following using either a loop or vectorization: vocallGp1-subset(vocallsub, Group==1) vocallGp2-subset(vocallsub, Group==2) vocallGp3-subset(vocallsub, Group==3) vocallGp4-subset(vocallsub, Group==4) vocallGp5-subset(vocallsub, Group==5)

Re: [R] vector help

2009-12-10 Thread David Winsemius
On Dec 10, 2009, at 2:55 PM, Ramya wrote: I have tow vectors one is the subset of another x is a subset of X Both are vectors with n elements X[X %in% x] would give me x again rite because it is a subset but i want all those are not in x from X. X[which(X != x)] should this do that

[R] January 2010***R Courses*** by XLSolutions Corp at 9 USA Cities: San Francisco, New York, Washington DC, Houston, Boston, Las Vegas, Seattle, etc

2009-12-10 Thread Sue Turner
Happy New Year ! XLSolutions January 2010 R courses schedule is now available online at 9 USA cities for *** R/Splus Fundamentals and Programming Techniques and R Advanced Programming***courses in January 2010. www.xlsolutions-corp.com/courselist.asp * New York City **

Re: [R] vector help

2009-12-10 Thread Steve Lianoglou
Hi Ramya, On Dec 10, 2009, at 3:29 PM, David Winsemius wrote: On Dec 10, 2009, at 2:55 PM, Ramya wrote: I have tow vectors one is the subset of another x is a subset of X Both are vectors with n elements X[X %in% x] would give me x again rite because it is a subset but i want all

Re: [R] vector help

2009-12-10 Thread Steve Lianoglou
Sender: microsoftexchange329e71ec88ae4615bbc36ab6ce411...@magnetar.com On-Behalf-Of: mailinglist.honey...@gmail.com Subject: Re: [R] vector help Message-Id: 118a120f-a549-4bbe-86a4-8157e6529...@journal.report.generator Recipient: 20...@boyersesf.com ---BeginMessage--- Sender:

Re: [R] vector help

2009-12-10 Thread Steve Lianoglou
Sender: r-help-boun...@r-project.org On-Behalf-Of: mailinglist.honey...@gmail.com Subject: Re: [R] vector help Message-Id: 2154bd29-add9-4cfc-8447-ba5eea3a3...@gmail.com Recipient: yingmei.la...@magnetar.com ---BeginMessage--- Hi Ramya, On Dec 10, 2009, at 3:29 PM, David Winsemius wrote: On

Re: [R] MLE for a t distribution

2009-12-10 Thread Albyn Jones
k - infinity gives the normal distribution. You probably don't care much about the difference between k=1000 and k=10, so you might try reparametrizing df on [1,infinity) to a parameter on [0,1]... albyn On Thu, Dec 10, 2009 at 02:14:26PM -0600, Barbara Gonzalez wrote: Given X1,...,Xn ~

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