[R] multivariate integration and partial differentiation

2009-03-06 Thread Wei-han Liu
Could somebody share some tips on implementing multivariate integration and partial differentiation in R? For example, for a trivariate joint distribution (cumulative density function) of F(x,y,z), how to differentiate with respect to x and get the bivariate distribution (probability density fu

[R] merge data frames with same column names of different lengths and missing values

2009-03-06 Thread Steven Lubitz
Hello, I'm switching over from SAS to R and am having trouble merging data frames. The data frames have several columns with the same name, and each has a different number of rows. Some of the values are missing from cells with the same column names in each data frame. I had hoped that when I m

[R] NonLinear Programming in R - QUERY

2009-03-06 Thread Lars Bishop
Hi All, I'll appreciate your help on this. Do you know of any package that can be used to solve optimization problems subject to general *non-linear* equality constraints. Thanks! Lars. [[alternative HTML version deleted]] __ R-help@r-project

[R] Fatal error: unable to restore saved data in .Rdata

2009-03-06 Thread Andy Prophet
To r-help Forum: I have downloaded R 2.8.1 and stalled it on my WinXP platform in folder: "C:\Program Files\R\R-2.8.1\bin\R.exe" R has worked properly with my data files and packages, which one call, past. However, this week I decided to move the data files and packages to different location:

Re: [R] Thousand separator on axis

2009-03-06 Thread Duncan Murdoch
Waldir Leôncio wrote: Is there an easy way to add a thousand separator mark on the axis of a plot? The best solution I've found so far is the following: y <- seq(0, 10, 1) plot(y, yaxt = "n", ylab = "") axis(2, at = y, labels = formatC(y, big.mark = " ", format = "d"), las=2) But that

Re: [R] R and vim (gvim) on ubuntu

2009-03-06 Thread Jose Quesada
-BEGIN PGP SIGNED MESSAGE- Hash: SHA1 > when I try to run an R command eg, "x <- rnorm(100,10,5)" vim returns this > error: > "~/.pipe" E212: can't open file for wirting" Hi Andreas, I'd recommend to use this script instead. It uses screen to communicate R and vim, it works well. http:/

Re: [R] Interpreting GLM coefficients

2009-03-06 Thread joris meys
One thing I notice immediately is a number of NA values for your coefficients. If I were you, I would try a model with less parameters, and use the anova() function to compare models, to see if the extra terms really improve the model. e.g. fit1 <- glm(Y~X1+X2+X3,...) fit2 <- glm(Y~X1+X2+X3+X1:X2,.

[R] Problem in Map function

2009-03-06 Thread Dr. Alireza Zolfaghari
Hi list, I have a real problem with plotting US state map. When I try to plot the northern state, there will be some blank space in the top of graph (see case 1 example), and when I plot southern states, there will be a blank space in the bottom of plot (see case 2). I spent almost 2 days to figure

[R] a general question

2009-03-06 Thread Bogdan Tanasa
Hi everyone, Although this question is more related to ChIP and ChIP-seq, it could be probably anchored in a more general statistical context. The question is : what method is better to assess the significance of the change in a signal (the signal can be DNA binding, for instance) given the bac

Re: [R] frequency of subsequent events

2009-03-06 Thread David Winsemius
?lag ?xtabs songseq <- read.table(textConnection("NrSongtype 1 S1 2 S2 3 S3 4 S1 5 S1 6 S2 7 S4"), header=TRUE, stringsAsFactors=FALSE) songseq$precsong <-c(NA,lag(songseq$Songtype)[1:6]) # need to drop last entry xtabs( ~ precsong + Songtype,

[R] Interpreting GLM coefficients

2009-03-06 Thread Pablo Pita Orduna
Hi all, I´m fitting GLM´s and I can´t interprete the coefficients when I run a model with interaction terms. When I run the simpliest model there is no problem: Model1<-glm (Fishes ~ Year + I(Year^2) + Kind.Geographic + Kind.Fishers + Zone.2 + Hours + Fishers + Month, family = poisson(lo

[R] frequency of subsequent events

2009-03-06 Thread miweiss1
Hello, The example shows a sequence of songtypes a bird has sang. The entire list contains several thousand songs which the bird has produced consecutively. Is there any convenient way in R to produce a contingency table which shows how often a special song type was sang after a special other son

Re: [R] R on netbooks et al?

2009-03-06 Thread Johannes Huesing
chaogai [Thu, Mar 05, 2009 at 07:04:19PM CET]: > I'm having similar experiences on my Acer Aspire One. Everything will > work good. Only thing that takes a lot of time is compiling R if you are > in the habit of doing so. > On the Fedora version that came with my Acer Aspire One, I am even think

[R] Interaction term not significant when using glm???

2009-03-06 Thread joris meys
Dear all, I have a dataset where the interaction is more than obvious, but I was asked to give a p-value, so I ran a logistic regression using glm. Very funny, in the outcome the interaction term is NOT significant, although that's completely counterintuitive. There are 3 variables : spot (binary

Re: [R] PCA and categorical data

2009-03-06 Thread Hans Ekbrand
On Fri, Mar 06, 2009 at 09:46:17AM -, Ted Harding wrote: > On 06-Mar-09 09:25:26, Prof Brian Ripley wrote: > > You might want to look into correspondence analysis, which has several > > variants of PCA designed for categorical data. > > In particular, have a look at the results of > > RSit

[R] Thousand separator on axis

2009-03-06 Thread Waldir Leôncio
Is there an easy way to add a thousand separator mark on the axis of a plot? The best solution I've found so far is the following: y <- seq(0, 10, 1) plot(y, yaxt = "n", ylab = "") axis(2, at = y, labels = formatC(y, big.mark = " ", format = "d"), las=2) But that seems like quite a hassl

Re: [R] R on netbooks et al?

2009-03-06 Thread Michael A. Miller
> "Liaw," == Liaw, Andy writes: > Are you sure that's dual atoms? AFAIK it has a single Atom > N270 (single core) at 1.6GHz. With hyper-threading, you > may see "two cpus". Yep - that is exactly what is going on. Mike __ R-help@r-pr

Re: [R] portable R editor

2009-03-06 Thread Federman, Douglas
You might also look at http://www.portableapps.com for a portable version of several editors, including gVim, Notepad++ and SciTE which all have some level of support for R -- "I like nonsense, it wakes up the brain cells. Fantasy is a necessary ingredient in living, it's a way of looking at l

Re: [R] Highly Connected Nodes in Igraph

2009-03-06 Thread Gábor Csárdi
Hello, please post to the list instead of posting me directly. I am sorry to say, but I don't really know what you want to do. First you asked about highly connected nodes, and now about clustering. Perhaps you could give an example with the input and the expected output. Btw, if you know how to

Re: [R] c() coverts real numbers to integers?

2009-03-06 Thread John Poulsen
Thanks! That solved it. I obviously had done something stupid. I just redefined my options(digits=7) and they are all there. Sorry for the silly question, and thanks for the suggestion towards options(). Thanks! John David Winsemius wrote: > STX<-c(16.0962, 16.1227, 16.0921, 16.1498) > ST

[R] c() coverts real numbers to integers?

2009-03-06 Thread John Poulsen
Hello, I know I am forgetting to do something silly. I typed coordinates in vectors (as below) but when I call them in R they come out as integers, and I want them to be real numbers. I have tried using as.numeric, as.real, etc... but they are still read by R as integers. STX<-c(16.0962, 1

[R] R and vim (gvim) on ubuntu

2009-03-06 Thread achristoffersen
Dear all - I do fret this to be a revealing beginner question - fortunately, this mailing list have been good to me in the paste .-) I am looking for a good R editor/environment in ubuntu. To that end, I have decided to dive into gvim as the modality offered here seems to make sense for editing.

Re: [R] R code -column headings

2009-03-06 Thread Gabor Grothendieck
To do that be sure to give each dimension, itself, a name when the matrix is defined: mat <-matrix(c(266, 359, 533, 313, 555, 504, 502, 242), nrow = 4, dimnames = list(Region = c("Northeast", "Midwest", "South", "West"), Type = c("Public", "Private"))) as.da

Re: [R] c() coverts real numbers to integers?

2009-03-06 Thread David Winsemius
> STX<-c(16.0962, 16.1227, 16.0921, 16.1498) > STY<-c(2.0387, 2.0214, 1.9877, 1.9846) > STX [1] 16.0962 16.1227 16.0921 16.1498 > STY [1] 2.0387 2.0214 1.9877 1.9846 Did you perhaps redefine c()? Or: options()$digits If not, then what do these say: str(STX) str(STY) On Mar 6, 2009, at 1:47

Re: [R] c() coverts real numbers to integers?

2009-03-06 Thread jim holtman
There are real numbers: > STX<-c(16.0962, 16.1227, 16.0921, 16.1498) > STY<-c(2.0387, 2.0214, 1.9877, 1.9846) > str(STX) num [1:4] 16.1 16.1 16.1 16.1 > str(STY) num [1:4] 2.04 2.02 1.99 1.98 > So what is your question? On Fri, Mar 6, 2009 at 1:47 PM, John Poulsen wrote: > Hello, > > I know I

[R] c() coverts real numbers to integers?

2009-03-06 Thread John Poulsen
Hello, I know I am forgetting to do something silly. I typed coordinates in vectors (as below) but when I call them in R they come out as integers, and I want them to be real numbers. I have tried using as.numeric, as.real, etc... but they are still read by R as integers. STX<-c(16.0962, 16.12

Re: [R] R code -column headings

2009-03-06 Thread jim holtman
Answer to your first question: > x<-matrix(c(266, 359, 533, 313, 555, 504, 502, 242),nrow=4) > rownames(x)=c( "Northeast", "Midwest", "South", "West" ) > colnames(x)=c("Public", "Private") > y <- as.data.frame(as.table(x)) > names(y)[1:2] <- c("Region", "Type") > y RegionType Freq 1 North

Re: [R] Highly Connected Nodes in Igraph

2009-03-06 Thread Gábor Csárdi
Nathan, if you have a weighted adjacency matrix, then you don't need graph packages for this, just do rowSums(data) or rowSums(data != 0) depending you want the sum of the weights of the adjacent edges, or just the number of adjacent edges. Or optionally colSums instead of rowSums if your grap

[R] Highly Connected Nodes in Igraph

2009-03-06 Thread Sur Nathan
Hello R Help Team, I have created graph from weighted adjecency matrix .Is there a way I can find highly connected nodes in Igraph like the Package RBGL does. nathan -- View this message in context: http://www.nabble.com/Highly-Connected-Nodes-in-Igraph-tp22377522p22377522.html Sent from the

Re: [R] error using R Commander for text file import

2009-03-06 Thread John Fox
Dear Doug, Here's my guess: the path to your file has an apostrophe in it -- I'm able to duplicate the error in this case. If that's the case, then a work-around would be to move the file. Meanwhile, I'll look into fixing the problem. Regards, John > -Original Message- > From: r-help-b

Re: [R] error using R Commander for text file import

2009-03-06 Thread John Fox
Dear Doug, Can you send me the file, along with information about the versions of the Rcmdr and R that you're using, and your OS? I suspect that the problem doesn't have to do with the file, but with the command that the Rcmdr is generating to read it, so some additional information would also be

Re: [R] Re peated ANOVA or nested ANOVA, or parallel one way ANOVA six times?

2009-03-06 Thread janey ding
Thank you for your reply, Dieter. I will try it. Looks like a split-block experiment. You should check # 1.6 at the bottom of library\nlme\scripts\Ch01.R, the package nlme, and the book by Pinheiro/ Bates. Dieter __ R-help@r-project.org mailing li

Re: [R] How to apply a function to slices of multidimensional arrays, and not just iterating through single elements

2009-03-06 Thread Todor Kondic
Dimitris, Domenico, It seems I was using apply in a wrong way. Thank you! TK 2009/3/6 Domenico Vistocco : > If I well understand, maybe you have still apply at your disposal: > > arrayA <- 1:60 > dim(arrayA) <- c(3,4,5) > apply(arrayA, 2, sum) > > You have the same result of: > res<-numeric(4);

[R] R code -column headings

2009-03-06 Thread Mary A. Marion
Hello, I have been noticing that some of my column headings are missing. Can you give me a clue as to how to 1] replace Var1 and Var 2 by Region and type ie do it right the first time x<-matrix(c(266, 359, 533, 313, 555, 504, 502, 242),nrow=4) rownames(x)=c( "Northeast", "Midwest", "South", "

Re: [R] error using R Commander for text file import

2009-03-06 Thread Doug Schwalm
I'd like to report another instance...one of my students has had the exact same error. I've checked the data, at it is a clean .csv file, with no quotation marks at all. I am currently at a loss at how to figure out what might be going wrong. -- View this message in context: http://www.nabble

Re: [R] Does R have function or method to finish my task?

2009-03-06 Thread Greg Snow
You have pretty much exhausted my expertise on time series, you may want to reask your question on the sig-finance list (with a more specific subject line), there seem to be more time series experts hanging out on that list (though someone please correct me if my impression is wrong). -- Gregor

Re: [R] Summary grouped by factor

2009-03-06 Thread soeren . vogel
On 06.03.2009, at 16:48, soeren.vo...@eawag.ch wrote: ### example:start v <- sample(rnorm(200), 100, replace=T) k <- rep.int(c("locA", "locB", "locC", "locD"), 25) tapply(v, k, summary) ### example:end ... (hopefully) produces 4 summaries of v according to k group membership. How can I transf

Re: [R] Summary grouped by factor

2009-03-06 Thread Domenico Vistocco
soeren.vo...@eawag.ch wrote: ### example:start v <- sample(rnorm(200), 100, replace=T) k <- rep.int(c("locA", "locB", "locC", "locD"), 25) tapply(v, k, summary) ### example:end This one is better: do.call(cbind, tapply(v,k,summary)) Ciao, domenico ... (hopefully) produces 4 summaries of v acc

Re: [R] Summary grouped by factor

2009-03-06 Thread Jorge Ivan Velez
Dear Sören, How about this? do.call(cbind,tapply(v, k, summary)) HTH, Jorge On Fri, Mar 6, 2009 at 10:48 AM, wrote: > ### example:start > v <- sample(rnorm(200), 100, replace=T) > k <- rep.int(c("locA", "locB", "locC", "locD"), 25) > tapply(v, k, summary) > ### example:end > > ... (hopeful

Re: [R] Summary grouped by factor

2009-03-06 Thread Domenico Vistocco
soeren.vo...@eawag.ch wrote: ### example:start v <- sample(rnorm(200), 100, replace=T) k <- rep.int(c("locA", "locB", "locC", "locD"), 25) tapply(v, k, summary) ### example:end Maybe this could be a solution: t1 <- tapply(v, k, summary) t2 <- sapply(t1, cbind) rownames(t2) <- names(t1[[1]]) t2

[R] Summary grouped by factor

2009-03-06 Thread soeren . vogel
### example:start v <- sample(rnorm(200), 100, replace=T) k <- rep.int(c("locA", "locB", "locC", "locD"), 25) tapply(v, k, summary) ### example:end ... (hopefully) produces 4 summaries of v according to k group membership. How can I transform the output into a nice table with the croups as co

Re: [R] R editor that will work with Rcmdr

2009-03-06 Thread Ledon Wong, Alain (Portfolio Analytics)
Hi, I also use R under Eclipse/StatET. I found the following doc really useful: http://www.splusbook.com/Rintro/R_Eclipse_StatET.pdf Regards Alain 212-449-4894 -Original Message- From: r-help-boun...@r-project.org [mailto:r-help-boun...@r-project.org] On Behalf Of John Fox Sent: Frid

Re: [R] R editor that will work with Rcmdr

2009-03-06 Thread John Fox
Dear Michael, For what it's worth, I develop the Rcmdr under Eclipse, and it works fine with Eclipse -- both under Windows and under Mac OS X. Of the IDEs that I've used with R, I'm most impressed with Eclipse/StatET, but configuration is non-trivial and documentation is sparse. I have a little e

Re: [R] Numbers

2009-03-06 Thread Christos Hatzis
You can easily write a simple function to do that: letters2num <- function(x) { nletters <- 1:length(LETTERS) names(nletters) <- LETTERS nletters[x] } > x <- c("A", "X", "F", "W", "G", "V", "L") > letters2num(x) A X F W G V L 1 24 6 23 7 22 12 -Christos > --

Re: [R] Numbers

2009-03-06 Thread Dimitris Rizopoulos
try this: x <- c("A", "X", "F", "W", "G", "V", "L") match(x, LETTERS) I hope it helps. Best, Dimitris Leandro Marino wrote: Hi, I know the function LETTERS, but, now I have some letters to convert it in numbers, like A=1,B=2, etc... Is any function to do that? Atenciosamente, Leandro Li

[R] Numbers

2009-03-06 Thread Leandro Marino
Hi, I know the function LETTERS, but, now I have some letters to convert it in numbers, like A=1,B=2, etc... Is any function to do that? Atenciosamente, Leandro Lins Marino Centro de Avaliação Fundação CESGRANRIO Rua Santa Alexandrina, 1011 - 2º andar Rio de Janeiro, RJ - CEP: 20261-903 R (21)

Re: [R] Statistics

2009-03-06 Thread per243
that statistic would be appropriate for non-linear regression?. know how I can calculate the VIF for a linear model?. per243 wrote: > > How can a non-linear regression to calculate the statistical R-square, > R-square adjusted, RMSE, VIF?? > Thanks > jose > -- View this message in context:

Re: [R] Linear Regression

2009-03-06 Thread Jorge Ivan Velez
Dear Sueli, Assuming that your data is in a data frame called "mydata", something like the following should work: # splitting the data by SAMPLE msp<-with(mydata,split(mydata,SAMPLE)) # linear models by sample models<-lapply(msp,function(x) lm(KA ~ PA, data = x)) # linear models by sample model

[R] help to use ppp in spatial analysis

2009-03-06 Thread Ricardo Perrone
Hi, i am using spatstat package for spatial data analysis and now i have a problem to create a point pattern. The points are in file "points.txt" (first column for Latitude and second column for Longitude ) and I imported them and separated each columns in two arrays x and y. If I plots x and

Re: [R] About warnings for non-matched items

2009-03-06 Thread Richard . Cotton
> I have many files in my directory. I want to transfer each data into > one which is readable. > They have so many possibilities, i have collected(manually and > visually) all possibilities and represent them as different numbers. > > Rep[grep('context_log',log1$Remain[1:length(log1$Date)]),]<-"

Re: [R] Time Series - ARIMA differencing problem

2009-03-06 Thread thefurryblur
The docx file (which includes graphs) can be opened with either Microsoft Office 2007 or if you have an earlier version: Google for the compatibility pack ...OR use openoffice 3. thefurryblur wrote: > > Uploaded the data and my comparison. Hopefully this will help illustrate > and solve the prob

[R] Travel funding for DSC/useR 2009 for young researchers at U.S. institutions

2009-03-06 Thread luke
*** Travel and Accommodation Support *** Funds from the U.S. National Science Foundation may be available to provide partial support for travel and accommodation for some graduate students and junior faculty at U.S. post-secondary institutions to attend DSC 2009 and useR 2009. If

Re: [R] fitting a gompertz model through the origin using nls

2009-03-06 Thread Ted Harding
On 06-Mar-09 11:33:21, Swantje Löbel wrote: > Dear all! > I tried to fit Gompertz growth models to describe cummulative > germination rates using nls. I used the following code: > > germ.model<-nls(percent.germ~a*exp(-b*exp(-k*day)),data=tab, > start=list(a> =100,b=10,k=0.5)) > >

Re: [R] Re peated ANOVA or nested ANOVA, or parallel one way ANOVA six times?

2009-03-06 Thread Dieter Menne
janey ding hotmail.com> writes: > Sorry! > > In my experiment, there are two type of soil ( soil F and soil D), each half > of them were subjected to steam sterilize (result in FS and DS soil). A > equal volume of soil from two of the four soil types (F, D, FS, DS) were > mixed as follows: F+F,

[R] offlist Re: Time Series - ARIMA differencing problem

2009-03-06 Thread David Winsemius
Your methods were sent in a docx file. I could be wrong, but it seems unlikely that very many people will bother to open such a file even if they do have an M$ product that will allow them to do so. My advice: First read the posting guide; then learn to sent plain text attachments. This is

Re: [R] Ask about glm()

2009-03-06 Thread joris meys
On 3/6/09, kenji_aoyagi wrote: > > Hi, > > I am using glm(). > I'd like to know what the command means. > > For example, > glm(family=binomial(link=logit)) > means logit model. Means : binomial response variable transformed with the logit Then, > glm(family=gaussian(link=logit)), > does this me

Re: [R] Statistics

2009-03-06 Thread Douglas Bates
On Thu, Mar 5, 2009 at 7:49 PM, per243 wrote: > How can a non-linear regression to calculate the statistical R-square, > R-square adjusted, RMSE, VIF?? It is not clear that these statistics are meaningful for a nonlinear regression model. For example, an R^2 value is meaningful when the model b

Re: [R] Time Series - ARIMA differencing problem

2009-03-06 Thread thefurryblur
Uploaded the data and my comparison. Hopefully this will help illustrate and solve the problem. http://www.nabble.com/file/p22371555/data.csv data.csv http://www.nabble.com/file/p22371555/arima%2Bmethods.docx arima+methods.docx -- View this message in context: http://www.nabble.com/Time-Series

Re: [R] Linear Regression

2009-03-06 Thread Douglas Bates
On Fri, Mar 6, 2009 at 6:07 AM, Sueli Rodrigues wrote: > > Hi, I have the following file, and I need to work out the linear > regression for each sample. I tried the model(*) and receive the error > message (**): >> data=split(mydata,rep(1:(nrow(mydata)/6),each=6)) >> arrang.linear=lapply(data,lm,

Re: [R] Extract dates from dataframe

2009-03-06 Thread Gabor Grothendieck
Try this: library(gsubfn) # convert date strings to dd-mm-yy Dates <- gsub("/", "-", dat$Dates) # regular expressiont to match dates re <- "\\d\\d-\\d\\d-\\d\\d" # extract dates and convert them to Date class # giving a list d each of whose components is a vector of dates d <- strapply(Dates, r

[R] About warnings for non-matched items

2009-03-06 Thread ling ling
Dear All, I have many files in my directory. I want to transfer each data into one which is readable. They have so many possibilities, i have collected(manually and visually) all possibilities and represent them as different numbers. Rep[grep('context_log',log1$Remain[1:length(log1$Date)]),]<-

[R] Linear Regression

2009-03-06 Thread Sueli Rodrigues
Hi, I have the following file, and I need to work out the linear regression for each sample. I tried the model(*) and receive the error message (**): > data=split(mydata,rep(1:(nrow(mydata)/6),each=6)) > arrang.linear=lapply(data,lm,formula=KA~PA) Erro em storage.mode(y) <- "double" : invalid to

Re: [R] how to omit NA without using ifelse

2009-03-06 Thread bartjoosen
?is.na Manli Yan wrote: > >I have a 50*50 matrix,some entry are NAs,I want to replace these NA by > 0,so can I use some syntax to do so other than using ifelse? >I tried to use replace(a,NA,0),it didnt work~~(a is matrix name) > > Thanks~ > > [[alternative HTML version delete

[R] Re peated ANOVA or nested ANOVA, or parallel one way ANOVA six times?

2009-03-06 Thread janey ding
Hi, every body! I am a new comer for R, so my question would unavoidablely sounds stupid. Sorry! In my experiment, there are two type of soil ( soil F and soil D), each half of them were subjected to steam sterilize (result in FS and DS soil). A equal volume of soil from two of the four soil typ

[R] impcat='tree'

2009-03-06 Thread Laura Bonnett
Dear All, I am going through a worked example provided by Harrell, Lee and Mark (1996, Stats in Medicine, 15, 361-387). I know that the code provided is for S-PLUS and R but the languages don't differ enough for this to be a problem. I am using the Hmisc and Design libraries and have used the fo

[R] fitting a gompertz model through the origin using nls

2009-03-06 Thread Swantje Löbel
Dear all! I tried to fit Gompertz growth models to describe cummulative germination rates using nls. I used the following code: germ.model<-nls(percent.germ~a*exp(-b*exp(-k*day)),data=tab,start=list(a=100,b=10,k=0.5)) My problem is that I want that the fitted model goes through the origin, since

[R] Extract dates from dataframe

2009-03-06 Thread bartjoosen
Hi, I have the following dataframe: IDDates 1 16-07-01 06-10-95 224/01/02 06-10-95 3 16/01/02 16/08/94 12/01/91 And I would like to extract the dates, but couple the ID's to the right dates, eg: ID Dates 116-07-01 1

Re: [R] How to apply a function to slices of multidimensional arrays, and not just iterating through single elements

2009-03-06 Thread Domenico Vistocco
If I well understand, maybe you have still apply at your disposal: arrayA <- 1:60 dim(arrayA) <- c(3,4,5) apply(arrayA, 2, sum) You have the same result of: res<-numeric(4);for (i in 1:4) res[i]<-sum(arrayA[,i,]) Ciao, domenico PS: have a look at plyr package for more "slicing" and "applying"

Re: [R] including tabular information with a plot in R Graphics

2009-03-06 Thread R User R User
Hi all, Thanks very much for the suggestions. My experience for the benefit of others is: - use addtable2plot if you want a fancier legend or small table *within* a plot area - use textplot if you want combinations of tables and text listings in the graphics device. The help for textplot gives a v

[R] function ctree in package party

2009-03-06 Thread Maxl18
Hi, I have a problem with the function ctree in the package party. When I launch ctree with weights=NULL it works. ctree(function~var1+var2, data=datalist, weights=NULL, controls=ctree_control(mincriterion=0.95, maxdepth=4, teststat="quad",testtype="Bonferroni")) But when I try ctree(function~va

Re: [R] How to apply a function to slices of multidimensional arrays, and not just iterating through single elements

2009-03-06 Thread Dimitris Rizopoulos
well, you can still use apply(), e.g., A <- array(rnorm(3*4*5), c(3, 4, 5)) f <- sum out <- numeric(4) for (i in 1:4) out[i] <- f(A[, i, ]) out apply(A, 2, f) I hope it helps. Best, Dimitris Todor Kondic wrote: Hello, If I want to apply some f(x) to such chunks of the the array dim(A)

Re: [R] modifying a built in function from the stats package (fixing arima) (CONCLUSIONS)

2009-03-06 Thread MarC Vinyes Raso
Thanks a lot to everybody that helped me out with this. Conclusions: (1) In order to edit arima in R: >fix(arima) or alternatively: >arima<-edit(arima) (2) This is not contained in the "Introduction to R" manual. (3) A "productive" fix of arima is attached (arma coefficients printed out and er

[R] How to apply a function to slices of multidimensional arrays, and not just iterating through single elements

2009-03-06 Thread Todor Kondic
Hello, If I want to apply some f(x) to such chunks of the the array dim(A)==c(d1,d2,d3,..,dk,...,dn) which are defined by A[...,ik,...] (ik belongs to {1,..,dk}), for now I use iteration via 'for (i in dim(A)[k]) f(A[...,k,...])' . Is there any more elegant approach, e.g like in 'apply' function w

Re: [R] File checking problem‏

2009-03-06 Thread ling ling
HI,Barry. Thanks a lot for your details reply. I have already rewritten the programs. Now it totally works. Your comment: " Note the use of comments and breaking the code up into small independent, testable functions" is really Valuable! Thanks again. Hi,David, You are right, My previous c

Re: [R] function ctree in package party

2009-03-06 Thread Mark Difford
Hi Maxl18, >> error in mo...@fit(data,...) : object "var3" not found >> What should I do? Make sure that "var3" exists/is available ## str(datalist$var3) ## is it here? ls(pattern="var3") ## is it here? Regards, Mark. Maxl18 wrote: > > Hi, > I have a problem with the function ctree i

[R] Re : PCA and categorical data

2009-03-06 Thread justin bem
See homals package in R. But also look documents for ade4 package.    Justin BEM BP 1917 Yaoundé Tél (237) 76043774   De : Galanidis Alexandros À : "r-help@r-project.org" Envoyé le : Vendredi, 6 Mars 2009, 10h09mn 18s Objet : [R] PCA and categorical data Hi al

Re: [R] R editor that will work with Rcmdr

2009-03-06 Thread Michael Bibo
John Sorkin grecc.umaryland.edu> writes: > > R 2.8.1 > Windows XP > Fedora Linux. > > I would like a suggestion for an editor that will help format my R code that can be used with Rcmdr. Is there > anything I need to know about running or installing an editor when using Rcmdr? I run R on both W

Re: [R] PCA and categorical data

2009-03-06 Thread Mark Difford
Hi Galandis, dudi.mix() in package ade4 does PCA using categorical and/or quantitative variables. Ordered cats are replaced by poly(x, deg=2). Squares of categoricals can also be used. The method is a generalization by Chessel of the method of Hill and Smith. Regards, Mark. Galanidis Alexandro

Re: [R] dummy variable encoding

2009-03-06 Thread Richard . Cotton
> > The best encoding depends upon which language you would like to manipulate > > the variable in. In R, genders are most naturally represented as factors. > > That means that in an external data source (like a spreadsheet of data), > > you should ideally have the gender recorded as human-

Re: [R] PCA and categorical data

2009-03-06 Thread Ted Harding
On 06-Mar-09 09:25:26, Prof Brian Ripley wrote: > You might want to look into correspondence analysis, which has several > variants of PCA designed for categorical data. In particular, have a look at the results of RSiteSearch("correspondence") Ted. > On Fri, 6 Mar 2009, Galanidis Alexandros

Re: [R] PCA and categorical data

2009-03-06 Thread Prof Brian Ripley
You might want to look into correspondence analysis, which has several variants of PCA designed for categorical data. On Fri, 6 Mar 2009, Galanidis Alexandros wrote: Hi all, I' m trying to figure out if it is appropriate to do a PCA having only categorical data (not ordinal). I have only fin

Re: [R] Automatically execute traceback when execution of script causes error?

2009-03-06 Thread Prof Brian Ripley
On Fri, 6 Mar 2009, Rainer M Krug wrote: Hi I am using R scripts which are running remotely. To make debugging easier, I would like to have the possibility to execute traceback() automatically when an error occurs. Is this possible? See options 'error' and 'showErrorCalls'. The latter is the

[R] Ask about glm()

2009-03-06 Thread kenji_aoyagi
Hi, I am using glm(). I'd like to know what the command means. For example, glm(family=binomial(link=logit)) means logit model. Then, glm(family=gaussian(link=logit)), does this mean? Thank you in advance. Kenji. A Analysis Manager SPI - Strategy, Productivity, Insight., Japan ___

[R] PCA and categorical data

2009-03-06 Thread Galanidis Alexandros
Hi all, I' m trying to figure out if it is appropriate to do a PCA having only categorical data (not ordinal). I have only find the following quote: One method to find such relationships is to select appropriate variables and to view the data using a method like Principle Components Analysis (PC

Re: [R] Odp: nice way to find or not a value (problem with numeric(0))

2009-03-06 Thread Petr PIKAL
Hi r-help-boun...@r-project.org napsal dne 05.03.2009 15:21:22: > > Hello Petr, > > In fact spec is data.frame with a column called code (containing numerical > values) and some other columns called data1, data2, ... containing data for > each equipment (that is for each code). > > But I don

[R] Automatically execute traceback when execution of script causes error?

2009-03-06 Thread Rainer M Krug
Hi I am using R scripts which are running remotely. To make debugging easier, I would like to have the possibility to execute traceback() automatically when an error occurs. Is this possible? OS: Linux Thanks Rainer -- Rainer M. Krug, PhD (Conservation Ecology, SUN), MSc (Conservation Biology

Re: [R] Regressão linear

2009-03-06 Thread Bernardo Rangel Tura
On Thu, 2009-03-05 at 02:20 +, Ben Bolker wrote: > Sueli Rodrigues esalq.usp.br> writes: > > > > Olá. Tenho um arquivo que a cada 6 linhas corresponde uma amostra da qual > > preciso dos coeficientes da regressão linear. Como faço para que o > > programa distinga a cada 6 linhas como uma amos

Re: [R] RV: help

2009-03-06 Thread Dieter Menne
Jani Lobo grupocomar.com> writes: > I want to estimate the survival mean of a few specific teams. I'm trying to > calculate it through a Kaplan Meier estimator. For doing so, I load the > "survival" package and run the following instructions: > > "options(survfit.print.mean=TRUE)" allows s

Re: [R] sm.options

2009-03-06 Thread Mark Difford
Hi Viviana, >> I am doing kernel density plots, and am trying to make the lines thicker. You need to hack the code for sm.density.compare. See the code below. This uses the same defaults as the original, but you can customize band colour, line width, and so on using arguments to the function. Th

Re: [R] sm.options

2009-03-06 Thread Dieter Menne
Viviana Ruiz gmail.com> writes: > I am doing kernel density plots, and am trying to make the lines thicker. I > comparing three groups, in sm.density.compare. I tried changing lwd to make > the line sthicker right on the density compare call, but was not able to do > it. There is not an option