Re: [R] simple lm question

2011-12-02 Thread David Winsemius
On Dec 2, 2011, at 11:20 PM, Worik R wrote: Duh! Silly me! But my confusion persits: What is the regression being done? See below Please note that your "df" and "M" are undoubtedly different objects by now: > M <- matrix(runif(5*20), nrow=20) > colnames(M) <- c('a', 'b', 'c',

Re: [R] simple lm question

2011-12-02 Thread Worik R
Duh! Silly me! But my confusion persits: What is the regression being done? See below On Sat, Dec 3, 2011 at 5:10 PM, R. Michael Weylandt < michael.weyla...@gmail.com> wrote: > In your code by supplying a vector M[,"e"] you are regressing "e" > against all the variables provided in the da

Re: [R] simple lm question

2011-12-02 Thread R. Michael Weylandt
In your code by supplying a vector M[,"e"] you are regressing "e" against all the variables provided in the data argument, including "e" itself -- this gives the very strange regression coefficients you observe. R has no way to know that that's somehow related to the "e" it sees in the data argumen

Re: [R] simple lm question

2011-12-02 Thread Worik R
> > Use `lm` the way it is designed to be used, with a data argument: > > > l2 <- lm(e~. , data=as.data.frame(M)) > > summary(l2) > > Call: > lm(formula = e ~ ., data = as.data.frame(M)) > > And what is the regression being done in this case? How are the independent variables used? It looks like

[R] side-by-side map with different geographies using spplot

2011-12-02 Thread David Epstein
Hello, I want to create side-by-side maps of similar attribute data in two different cities using a single legend. To simply display side-by-side census block group boundary (non-thematic) maps for Minneapolis & Cleveland I do the following: library(rgdal) library(sp) Minneapolis=readOGR(".

Re: [R] Help! Big problem when using "browser()" to do R debugging?

2011-12-02 Thread Duncan Murdoch
On 11-12-02 8:38 PM, Michael wrote: Hi all, Could you please help me? I am having the following weird problem when debugging R programs using "browser()": In my function, I've inserted a "browser()" in front of Step 1. My function has 3 steps and at the end of each step, it will print out the

[R] Help! Big problem when using "browser()" to do R debugging?

2011-12-02 Thread Michael
Hi all, Could you please help me? I am having the following weird problem when debugging R programs using "browser()": In my function, I've inserted a "browser()" in front of Step 1. My function has 3 steps and at the end of each step, it will print out the message "Step i is done"... However,

Re: [R] Plot and polygon in log scale

2011-12-02 Thread Peter Ehlers
On 2011-12-02 13:03, Santosh wrote: Dear Experts, When using "plot" and "polygon", I can change the density and angle of the shaded area lines when plotting is done in regular scale. It does not seem to work in 'log' scale. Any suggestions would be highly appreciated! below is an example: plot

Re: [R] Imputing data

2011-12-02 Thread Weidong Gu
Hi, For imputation using randomForest package, check ?rfImpute Weidong On Fri, Dec 2, 2011 at 6:00 PM, Peter Langfelder wrote: > On Fri, Dec 2, 2011 at 2:16 PM, khlam wrote: >> So I have a very big matrix of about 900 by 400 and there are a couple of NA >> in the list. I have used the followi

Re: [R] R, PostgresSQL and poor performance

2011-12-02 Thread Joe Conway
On 12/02/2011 09:46 PM, Berry, David I. wrote: > Thanks for the reply and suggestions. I've tried the RpgSQL drivers and > the results are pretty similar in terms of performance. > > The ~1.5M records I'm trying to read into R are being extracted from a > table with ~300M rows (and ~60 columns) th

Re: [R] Imputing data

2011-12-02 Thread Peter Langfelder
On Fri, Dec 2, 2011 at 2:16 PM, khlam wrote: > So I have a very big matrix of about 900 by 400 and there are a couple of NA > in the list. I have used the following functions to impute the missing data > > data(pc) > pc.na<-pc > pc.roughfix <- na.roughfix(pc.na) > pc.narf <- randomForest(pc.na, na

Re: [R] Sweave problem on Mac OS when using umlauts and summary()

2011-12-02 Thread Yihui Xie
This problem comes up so frequently that I have made options(useFancyQuotes=FALSE) by default in my knitr package: http://yihui.github.com/knitr/ You can also use options(useFancyQuotes='TeX'). Regards, Yihui -- Yihui Xie Phone: 515-294-2465 Web: http://yihui.name Department of Statistics, Iowa

[R] Writing data including NAs to access using RODBC

2011-12-02 Thread Matthew Johnson
Hi, I have run into a problem writing data using RODBC. The dataframe i have read in from access includes some NAs. I have put the data into an xts object, manipulated the data, and would now like to append two columns of the manipulated data to the original table in access. I cannot append the d

[R] Imputing data

2011-12-02 Thread khlam
So I have a very big matrix of about 900 by 400 and there are a couple of NA in the list. I have used the following functions to impute the missing data data(pc) pc.na<-pc pc.roughfix <- na.roughfix(pc.na) pc.narf <- randomForest(pc.na, na.action=na.roughfix) yet it does not replace the NA in th

Re: [R] Fw: calculate mean of multiple rows in a data frame

2011-12-02 Thread Jabez Wilson
Thank you, I copied the data from the R environment, but it came out wrong. You understood exactly what I wanted, and your solution is admirable: I clearly need to address the naming convention. Thanks for your help. --- On Fri, 2/12/11, Jean V Adams wrote: From: Jean V Adams Subject: Re: [R

[R] Sweave problem on Mac OS when using umlauts and summary()

2011-12-02 Thread Mark Heckmann
I have the following Sweave file which gets sweaved correctly. <<>>= m <- lm(y1 ~x1, anscombe) summary(m) @ I include the sweaved .tex file into another .tex file via include. When I use a single umlaut in the .snw file a warning occurs. As a result part of the summary output is not contained in

Re: [R] RFE: vectorized behavior for as.POSIXct tz argument

2011-12-02 Thread David Winsemius
On Dec 2, 2011, at 4:06 PM, Jack Tanner wrote: David Winsemius comcast.net> writes: sapply(tz, function(ttt) as.POSIXct(x=x, tz=ttt, origin="1960-01-01"),simplify=FALSE) Sure, there's no end of workarounds. It would just be consistent to treat both the x and the tz arguments as vectors.

Re: [R] RFE: vectorized behavior for as.POSIXct tz argument

2011-12-02 Thread Jack Tanner
David Winsemius comcast.net> writes: > sapply(tz, function(ttt) as.POSIXct(x=x, tz=ttt, > origin="1960-01-01"),simplify=FALSE) Sure, there's no end of workarounds. It would just be consistent to treat both the x and the tz arguments as vectors. __ R

[R] Plot and polygon in log scale

2011-12-02 Thread Santosh
Dear Experts, When using "plot" and "polygon", I can change the density and angle of the shaded area lines when plotting is done in regular scale. It does not seem to work in 'log' scale. Any suggestions would be highly appreciated! below is an example: plot(1:10,c(1:10)^2*20,log="y") polygon(c(

Re: [R] RFE: vectorized behavior for as.POSIXct tz argument

2011-12-02 Thread David Winsemius
On Dec 2, 2011, at 2:28 PM, Jack Tanner wrote: x <- 1472562988 + 1:10; tz <- rep("EST",10) # Case 1: Works as documented ct <- as.POSIXct(x, tz=tz[1], origin="1960-01-01") # Case 2: Fails ct <- as.POSIXct(x, tz=tz, origin="1960-01-01") sapply(tz, function(ttt) as.POSIXct(x=x, tz=ttt, orig

Re: [R] Summarizing elements of a list

2011-12-02 Thread R. Michael Weylandt
Here's a slight modification that is even faster if speed is a consideration: sapply(Version1_, `[[`, "First") The thought process is to go through the list "Version1_" and apply the operation `[[` to each element individually. This requires a second operator (here the element name "First") which

Re: [R] order function give back row name

2011-12-02 Thread Sarah Goslee
With similar data, since you didn't include reproducible example of your own: > results <- matrix(c(53, 55, 37, 83), nrow=1) > colnames(results) <- letters[1:4] > results a b c d [1,] 53 55 37 83 > order(results) [1] 3 1 2 4 > colnames(results)[order(results)] [1] "c" "a" "b" "d" On Fri

Re: [R] order function give back row name

2011-12-02 Thread R. Michael Weylandt
names(results)[order(results)] Michael On Fri, Dec 2, 2011 at 2:45 PM, Martin Bauer wrote: > Hello, > > > I have a matrix results with dimension 1x9 double matrix > >         XLB       XLE             XLF         XLI > 1       53.3089  55.77923       37.64458     83.08646 > > I'm trying to order

Re: [R] Intersection of 2 matrices

2011-12-02 Thread jim holtman
Here is one way of doing it: >compMat2 <- function(A, B) { # rows of B present in A +B0 <- B[!duplicated(B), ] +na <- nrow(A); nb <- nrow(B0) +AB <- rbind(A, B0) +ab <- duplicated(AB)[(na+1):(na+nb)] +return(sum(ab)) +} > > >set.seed(8237) >

[R] order function give back row name

2011-12-02 Thread Martin Bauer
Hello, I have a matrix results with dimension 1x9 double matrix XLB XLE XLF XLI 1 53.3089 55.77923 37.64458 83.08646 I'm trying to order this matrix > print(order(results)) [1] 3 1 2 4 how can the function order return the columnname XLF

Re: [R] Summarizing elements of a list

2011-12-02 Thread LCOG1
Great, this worked the fastest of all the suggestions. Cheers, Josh From: Michael Weylandt [via R] [mailto:ml-node+s789695n414494...@n4.nabble.com] Sent: Thursday, December 01, 2011 8:11 PM To: ROLL Josh F Subject: Re: Summarizing elements of a list Similarly, t

Re: [R] Problem subsetting: undefined columns

2011-12-02 Thread Aurélien PHILIPPOT
thanks Michael. I played with your suggestion to get the output in the format I wanted, and I found the following that works fine: sub<-d[, which(colnames(d) %in% v) ] Aurelien 2011/12/2 R. Michael Weylandt < michael.weyla...@gmail.com> > How about this? > > d[, v[v %in% colnames(d)]] > > Mich

Re: [R] Summarizing elements of a list

2011-12-02 Thread LCOG1
Thank you for the help, I knew it could be done with a member of the apply family. I struggle with apply stuff though, its not always intuitive for me with these functions. Cheers, JR From: Sarah Goslee [via R] [mailto:ml-node+s789695n414453...@n4.nabble.com] S

Re: [R] Intersection of 2 matrices

2011-12-02 Thread Hans W Borchers
Michael Kao gmail.com> writes: > Well, taking a second look, I'd say it depends on the exact formulation. In the applications I have in mind, I would like to count each occurrence in B only once. Perhaps the OP never thought about duplicates in B Hans Werner > > Here is an example based on t

[R] RFE: vectorized behavior for as.POSIXct tz argument

2011-12-02 Thread Jack Tanner
x <- 1472562988 + 1:10; tz <- rep("EST",10) # Case 1: Works as documented ct <- as.POSIXct(x, tz=tz[1], origin="1960-01-01") # Case 2: Fails ct <- as.POSIXct(x, tz=tz, origin="1960-01-01") If case 2 worked, it'd be a little easier to process paired (time, time zone) vectors from different time z

Re: [R] Intersection of 2 matrices

2011-12-02 Thread Hans W Borchers
Michael Kao gmail.com> writes: > Your solution is fast, but not completely correct, because you are also counting possible duplicates within the second matrix. The 'refitted' function could look as follows: compMat2 <- function(A, B) { # rows of B present in A B0 <- B[!duplicated(

[R] Project local libraries (reproducible research)

2011-12-02 Thread Hadley Wickham
Hi all, I was wondering if any one had scripts that they could share for capturing the current version of R packages used for a project. I'm interested in creating a project local library so that you're safe if someone (e.g. the ggplot2 author) updates a package you're relying on and breaks your c

Re: [R] Error in Genetic Matching

2011-12-02 Thread R. Michael Weylandt
The error message is pretty explicit: your problem is taht one of your inputs has NA (missing value) in it and the GenMatch() function is not prepared to handle the. You can find which one by running: any(is.na(Tr)) any(is.na(X.binarynp) any(is.na(BalanceMatrix.binarynp)) and then use View() on

[R] Compiling R using Solaris Studio

2011-12-02 Thread RogerP
I am trying to compile R using Solaris Studio, but it keeps trying to use the GNU compiler! I've tried editing all the Makeconf files I can find, but configure keeps changing them back! I tried to rename the GNU directory so it could not find gcc, but then I got a missing lib error. How does one

Re: [R] help in dbWriteTable

2011-12-02 Thread David M. Schruth
Hi, The following code should work: fields <- dbListFields(con, db.table.name) reordered.names <- names(df)[match(fields, names(df))] df <- df[ ,reordered.names] But, you might want to try using the function 'dbWriteTable2' in the 'caroline' package. (In fact the three lines above have been co

Re: [R] References for book "R In Action" by Kabacoff

2011-12-02 Thread Pablo Domínguez Vaselli
The references are here: http://manning.com/kabacoff/excerpt_references.pdf (they will be included on the next printing too, got omitted by mistake) Regards, Pablo [[alternative HTML version deleted]] __ R-help@r-project.org mailing list http

Re: [R] Problem with loop

2011-12-02 Thread R. Michael Weylandt
You never create a variable called "Mat2002273" or "Mat2002361" so you can't ask R to loop over all the values between them. If I were you, I'd code something like this: lf <- list.files() # PUT IN SOME CODE TO REMOVE FILES YOU DON'T WANT TO USE pv <- vector("numeric", length(lf)) for(i in lf)

Re: [R] Intersection of 2 matrices

2011-12-02 Thread Michael Kao
On 2/12/2011 2:48 p.m., David Winsemius wrote: On Dec 2, 2011, at 4:20 AM, oluwole oyebamiji wrote: Hi all, I have matrix A of 67420 by 2 and another matrix B of 59199 by 2. I would like to find the number of rows of matrix B that I can find in matrix A (rows that are common to both matr

[R] Problem with loop

2011-12-02 Thread Komine
Hi, I try to build a loop difficultly. I have in a folder called Matrices several files (.csv) called Mat2002273, Mat2002274 to Mat2002361. I want to calculate for each file the mean of the column called Pixelvalues. I try this code but as result, I have this message: Mat2002273 not found >

[R] Partitioning Around Mediods then rpart to follow - is this sensible

2011-12-02 Thread Stephen Sefick
The problem: There are no a priori groupings to run a classification on My solution: This is a non-R code question, so I appreciate any thoughts. I have used pam in the cluster package proceeded by sillohouette to find the optimum number of clusters on scaled and centered data. I have follo

Re: [R] Problem subsetting: undefined columns

2011-12-02 Thread R. Michael Weylandt
How about this? d[, v[v %in% colnames(d)]] Michael On Dec 2, 2011, at 12:01 PM, Aurélien PHILIPPOT wrote: > Hi Paul and Jim, > Thanks for your messages. > > I just wanted R to give me the columns of my data frame d, whose names > appear in v. I do not care about the names of v that are not i

Re: [R] Unexplained behavior of level names when using ordered factors in lm?

2011-12-02 Thread Steve Lianoglou
Hi Bert, Since you opened the door ... On Fri, Dec 2, 2011 at 10:06 AM, Bert Gunter wrote: > ?ordered > ?C > ?contr.poly > > If you don't know what polynomial contrasts are, consult any good > linear models text. MASS has a good, though a bit terse, section on > this. Do you have a "favorite" l

Re: [R] Random Forests in R

2011-12-02 Thread Axel Urbiz
Thanks for this! Axel. On Thu, Dec 1, 2011 at 11:29 AM, Liaw, Andy wrote: > The first version of the package was created by re-writing the main > program in the original Fortran as C, and calls other Fortran subroutines > that were mostly untouched, so dynamic memory allocation can be done. >

Re: [R] Graphics - Axis Labels overlap window edges

2011-12-02 Thread Uwe Ligges
On 02.12.2011 17:41, robgriffin247 wrote: Hi, I am trying to put larger axis labels on my graphs (using cex.axis and cex.label) but when I do this the top of the text on the Y axis goes outside of the window which you can see in this picture -http://twitter.com/#!/robgriffin247/status/14264288

Re: [R] R + memory of objects

2011-12-02 Thread Uwe Ligges
I guess the numbers your report are what your OS shows you? R runs garbage collection (which can be manually triggred by gc()) after certain fuzzy rules. So what you report below is not always the current required memory but what was allocated and not yet garbnage collected. See ?object.size

Re: [R] Problem subsetting: undefined columns

2011-12-02 Thread Aurélien PHILIPPOT
Hi Paul and Jim, Thanks for your messages. I just wanted R to give me the columns of my data frame d, whose names appear in v. I do not care about the names of v that are not in d. In addition, every time, there will be at least one element of v that has a corresponding column in d, for sure, so I

[R] Graphics - Axis Labels overlap window edges

2011-12-02 Thread robgriffin247
Hi, I am trying to put larger axis labels on my graphs (using cex.axis and cex.label) but when I do this the top of the text on the Y axis goes outside of the window which you can see in this picture -http://twitter.com/#!/robgriffin247/status/142642881436450816/photo/1 - (if you click on the pict

[R] R + memory of objects

2011-12-02 Thread Marc Jekel
Dear R community, I am still struggling a bit on how R does memory allocation and how to optimize my code to minimize working memory load. Simon (thanks!) and others gave me a hint to use the command "gc()" to clean up memory which works quite nice but appears to me to be more like a "fix" to a

Re: [R] Willkommen bei der "R-help" Mailingliste

2011-12-02 Thread karajamu
Hello everbody, I am new to this mailing list and hope to find some help. I'm trying to get into the spatstat package and encountered two problems. First a graphical one: There is an example dataset called "finpines" which has several marks (http://www.oga-lab.net/RGM2/func.php?rd_id=spatstat:f

Re: [R] CART with rpart

2011-12-02 Thread Tal Galili
Hi Jan, You are likely to simply use ?predict (e.g: predict.rpart) Are you using a classification or a regression tree? Contact Details:--- Contact me: tal.gal...@gmail.com | 972-52-7275845 Read me: www.talgalili.com (Hebrew) |

Re: [R] Unexplained behavior of level names when using ordered factors in lm?

2011-12-02 Thread Tal Galili
Thank you both Bert and David, for the quick reply. I will look further into this. With regards, Tal Contact Details:--- Contact me: tal.gal...@gmail.com | 972-52-7275845 Read me: www.talgalili.com (Hebrew) | www.biostatistics.c

[R] CART with rpart

2011-12-02 Thread kende jan
dear all, i want to keep in my data file the results of  terminal nodes (groups) after CART analysis for performing other statisticals analysis by this groups. can you help me please? thanks. jan. [[alternative HTML version deleted]] __ R

Re: [R] breaking up n object into random groups

2011-12-02 Thread Bert Gunter
There are a million ways to do this, probably. brks <- c(1,sort(sample(seq_len(99),3)),100) ## 4 random groups and then use brks as the breaks parameter in cut() with include.lowest = TRUE ?cut -- Bert On Fri, Dec 2, 2011 at 7:09 AM, statfan wrote: > say n = 100 > I want to partition this i

Re: [R] breaking up n object into random groups

2011-12-02 Thread David Winsemius
On Dec 2, 2011, at 10:09 AM, statfan wrote: say n = 100 I want to partition this into 4 random groups wheren n1 + n2 + n3 + n4 = n and ni is the number of elements in group i. Try assigning with a sample() from: unlist(mapply(rep, c(1:4), each=c(n1,n2,n3,n4))) -- David Winsemius, MD We

Re: [R] How to test for Poisson?

2011-12-02 Thread B77S
A simple way to determine if it is NOT is to see if the mean (the single parameter of a poisson: lambda) and variance are the same. This really has nothing to do with R (other than the data source), and since it is homework, you will likely get no further help here. Good luck. RToss wrote > >

Re: [R] Unexplained behavior of level names when using ordered factors in lm?

2011-12-02 Thread David Winsemius
On Dec 2, 2011, at 9:51 AM, Tal Galili wrote: Hello dear all, I am unable to understand why when I run the following three lines: set.seed(4254) a <- data.frame(y = rnorm(40), x=ordered(sample(1:5, 40, T))) summary(lm(y ~ x, a)) The output I get includes factor levels which are not releva

[R] breaking up n object into random groups

2011-12-02 Thread statfan
say n = 100 I want to partition this into 4 random groups wheren n1 + n2 + n3 + n4 = n and ni is the number of elements in group i. Thank you for you help -- View this message in context: http://r.789695.n4.nabble.com/breaking-up-n-object-into-random-groups-tp4147476p4147476.html Sent from the R

[R] How to test for Poisson?

2011-12-02 Thread RToss
Hi! I am sitting with a school assignment, but I got stuck on this one. I am suppose to test if my data is Poisson-distributed. The data I´m using is the studie "Bids", found in the Ecdat-package, and the variable of interest is the dependent "numbids". How do I practically perform a test for this

[R] Error in Genetic Matching

2011-12-02 Thread shyam basnet
Dear R Users, I am a novice learner of R software. I am working with Genetic Matching - GenMatch(), but I am getting an Error message as follows:  Error in GenMatch(Tr = Tr, X = X.binarynp, BalanceMatrix = BalanceMatrix.binarynp,  :    GenMatch(): input includes NAs Could you please suggest me

Re: [R] R, PostgresSQL and poor performance

2011-12-02 Thread Berry, David I.
On 01/12/2011 17:01, "Gabor Grothendieck" wrote: >On Thu, Dec 1, 2011 at 10:02 AM, Berry, David I. wrote: >> Hi List >> >> Apologies if this isn't the correct place for this query (I've tried a >>search of the mail archives but not had much joy). >> >> I'm running R (2.14.0) on a Mac (OSX v 10.

[R] Save Venn-diagram (Vennerable) together with table and plot in single pdf page

2011-12-02 Thread Sonja Braaker
Dear R-users I want to save a list with characters a point plot and a Venn diagram in a single pdf page. I am successful to do this when I use a character list and two point plots. However when I try to replace the first point plots with my Venn diagram (built with Vennerable package, compute

Re: [R] Unexplained behavior of level names when using ordered factors in lm?

2011-12-02 Thread Bert Gunter
Maybe should have explicitly said: > C(ordered(1:5)) [1] 1 2 3 4 5 attr(,"contrasts") ordered contr.poly Levels: 1 < 2 < 3 < 4 < 5 -- Bert On Fri, Dec 2, 2011 at 7:06 AM, Bert Gunter wrote: > ?ordered > ?C > ?contr.poly > > If you don't know what polynomial contrasts are, consult any good >

Re: [R] Unexplained behavior of level names when using ordered factors in lm?

2011-12-02 Thread Bert Gunter
?ordered ?C ?contr.poly If you don't know what polynomial contrasts are, consult any good linear models text. MASS has a good, though a bit terse, section on this. -- Bert On Fri, Dec 2, 2011 at 6:51 AM, Tal Galili wrote: > Hello dear all, > > I am unable to understand why when I run the follow

[R] what is used as height in hclust for ward linkage?

2011-12-02 Thread james.foadi
Dear R community, I am trying to understand how the ward linkage works from a quantitative point of view. To test it I have devised a simple 3-members set: G = c(0,2,10) The distances between all couples are: d(0,2) = 2 d(0,10) = 10 d(2,10) = 8 The smallest distan

[R] Unexplained behavior of level names when using ordered factors in lm?

2011-12-02 Thread Tal Galili
Hello dear all, I am unable to understand why when I run the following three lines: set.seed(4254) > a <- data.frame(y = rnorm(40), x=ordered(sample(1:5, 40, T))) > summary(lm(y ~ x, a)) The output I get includes factor levels which are not relevant to what I am actually using: Call: > lm(form

Re: [R] Fw: calculate mean of multiple rows in a data frame

2011-12-02 Thread Jean V Adams
It's easier for folks to help you if you put your example data in a format that can be readily read in R. See, for example, the dput() function, which you can use to provide us with something like this: DF <- structure(list(NAME = c("Control_1", "Control_2", "Control_1", "Control_3", "MM0289~R

Re: [R] find and replace string

2011-12-02 Thread Sarah Goslee
You've been given a workable solution already, but here's a one-liner: > x <- c('sta_+1+0_field2ndtry_$01.cfg' , > 'sta_+B+0_field2ndtry_$01.cfg' , 'sta_+1+0_field2ndtry_$01.cfg' , > 'sta_+9+0_field2ndtry_$01.cfg') > sapply(1:length(x), function(i)gsub("\\+(.*)\\+.", paste("\\+\\

Re: [R] Resampling with replacement on a binary (0, 1) dataset to get Cis

2011-12-02 Thread David Winsemius
On Dec 2, 2011, at 3:55 AM, lincoln wrote: Thanks. Anyway, it is not homework and I was not told to do that. My question has not been answered yet, I'll try to reformulate it: Does it make (statistical) sense to resample with replacement in this situation to get an estimate of the CIs? In ca

Re: [R] logistic regression - glm.fit: fitted probabilities numerically 0 or 1 occurred

2011-12-02 Thread Patrick Breheny
On 12/01/2011 08:00 PM, Ben quant wrote: The data I am using is the last file called l_yx.RData at this link (the second file contains the plots from earlier): http://scientia.crescat.net/static/ben/ The logistic regression model you are fitting assumes a linear relationship between x and the

Re: [R] Intersection of 2 matrices

2011-12-02 Thread David Winsemius
On Dec 2, 2011, at 4:20 AM, oluwole oyebamiji wrote: Hi all, I have matrix A of 67420 by 2 and another matrix B of 59199 by 2. I would like to find the number of rows of matrix B that I can find in matrix A (rows that are common to both matrices with or without sorting). I have trie

Re: [R] about quantreg() package loading

2011-12-02 Thread R. Michael Weylandt
It means you also need to install SparseM on which quantreg depends. This can be done in exactly the same way, either by direct download using install.packages() or local install. Michael On Dec 2, 2011, at 6:30 AM, narendarreddy kalam wrote: > Hi all, > my os is windows 7 and R version i

Re: [R] find and replace string

2011-12-02 Thread Alaios
You are too good :) Thanks a lot have a nice weekend B.R Alex From: jim holtman Cc: "R-help@r-project.org" Sent: Friday, December 2, 2011 1:51 PM Subject: Re: [R] find and replace string try this: > x <- c('sta_+1+0_field2ndtry_$01.cfg' +      , 'sta_

[R] Error message in Genetic Matching

2011-12-02 Thread shyam basnet
Dear R Users, I am a novice learner of R software. I am working with Genetic Matching - GenMatch(), but I am getting an Error message as follows:  Error in GenMatch(Tr = Tr, X = X.binarynp, BalanceMatrix = BalanceMatrix.binarynp,  :    GenMatch(): input includes NAs Could you please suggest me

Re: [R] find and replace string

2011-12-02 Thread christiaan pauw
If the length of the fists part is constant (the "sta_+1+" part) the you can use substr() On 2 December 2011 13:30, Alaios wrote: > Dear all, > I would like to search in a string for the second occurrence of a symbol and > replace the symbol after it > > For example my strings look like > >

Re: [R] about quantreg() package loading

2011-12-02 Thread narendarreddy kalam
Hi all, my os is windows 7 and R version is 2.14.and i used the qunatreg zip file(binary version for windows) to install. -- View this message in context: http://r.789695.n4.nabble.com/about-quantreg-package-loading-tp4146366p4146390.html Sent from the R help mailing list archive at Nabble.com.

[R] about quantreg() package loading

2011-12-02 Thread narendarreddy kalam
Hi all, i have installed the quantreg Package using the install packages from local zip fiels option. then i got the following message utils:::menuInstallLocal() package ‘quantreg’ successfully unpacked and MD5 sums checked is that mean quantreg package got installed on my machine?? if so why i am

[R] Rmpi installation problems

2011-12-02 Thread Jos Elkink
Hi all, I am trying to install the Rmpi package in R and, while the installation itself works, it breaks down when trying to load the library. I think it has something to do with shared vs static loading of helper libraries, or the order in which shared libraries are loaded, but I am not sure. R

[R] Intersection of 2 matrices

2011-12-02 Thread oluwole oyebamiji
Hi all,     I have matrix A of 67420 by 2 and another matrix B of 59199 by 2. I would like to find the number of rows of matrix B that I can find in matrix A (rows that are common to both matrices with or without sorting). I have tried the "intersection" and "is.element" functions in R but it on

Re: [R] find and replace string

2011-12-02 Thread jim holtman
try this: > x <- c('sta_+1+0_field2ndtry_$01.cfg' + , 'sta_+1+0_field2ndtry_$01.cfg' + , 'sta_+1-0_field2ndtry_$01.cfg' + , 'sta_+1+0_field2ndtry_$01.cfg' + ) > # find matching fields > values <- grep("[^+]*\\+[^+]*\\+0", x, value = TRUE) > # split into two piec

[R] find and replace string

2011-12-02 Thread Alaios
Dear all, I would like to search in a string for the second occurrence of a symbol and replace the symbol after it For example my strings look like sta_+1+0_field2ndtry_$01.cfg I want to find the digit that comes after the second +, in that case is zero and then over a loop create the strin

Re: [R] question about plsr() results

2011-12-02 Thread Bjørn-Helge Mevik
Vytautas Rakeviius writes: > But still I have question about results interpretation. In the end I > want to construct prediction function in form: > Y=a1x1+a2x2 The predict() function does the prediction for you. If you want to construct the prediction _equation_, you can extract the coefficien

Re: [R] export array

2011-12-02 Thread Jim Holtman
Depends on how you want to 'check'. I usually use 'View' to see if the data looks OK. You could write some more code to check the 'reasonableness' of the data. It sounds like you have to learn some ways of 'debugging' your code. Checking your data depends on what the criteria is for determinin

Re: [R] export array

2011-12-02 Thread Ana
Hi! I would just like to have a way to check if my functions are working ok. If the subset I am extracting is ok (both coordinates and dataset). The files are nectdf format that I import into R (I only import a small geographic subset). Is there another software that will allow me to do this just

Re: [R] Problem subsetting: undefined columns

2011-12-02 Thread Paul Hiemstra
On 12/02/2011 07:20 AM, Aurélien PHILIPPOT wrote: > Dear R-users, > -I am new to R, and I am struggling with the following problem. > > -I am repeating the following operations hundreds of times, within a loop: > I want to subset a data frame by columns. I am interested in the columns > names that

Re: [R] Problem subsetting: undefined columns

2011-12-02 Thread Jim Holtman
?try If you know that you might have a problem with undefined columns, or whatever, then trap the error with 'try' so your program can recover. You could also validate the data that you are going to use before entering the loop; standard defensive programming - errors are always going to happe

Re: [R] export array

2011-12-02 Thread Jim Holtman
What do you want to do with it after you export; that will probably define what the data format would look like. Why would you want each dimension separately? How would you correlate them later? Is it really 3 dimensions, or is your data just three columns where each row is long, lat and obse

[R] export array

2011-12-02 Thread Ana
What is the best way to export 1 array?? the array i am trying to export has 3 dimensions (long,lat,observations) how can i export each dimension independently? e.g. one csv file with only the long __ R-help@r-project.org mailing list https://stat.ethz

Re: [R] Resampling with replacement on a binary (0, 1) dataset to get Cis

2011-12-02 Thread lincoln
Thanks. Anyway, it is not homework and I was not told to do that. My question has not been answered yet, I'll try to reformulate it: Does it make (statistical) sense to resample with replacement in this situation to get an estimate of the CIs? In case it does, how could I do it in R? Some further

Re: [R] What's the baseline model when using coxph with factor variables?

2011-12-02 Thread Andreas Schlicker
William and David, thanks for your help. The contrasts option was indeed what I was looking for but didn't find. andi On 01.12.2011 20:56, David Winsemius wrote: On Dec 1, 2011, at 1:00 PM, William Dunlap wrote: Terry will correct me if I'm wrong, but I don't think the answer to this questio

[R] Problem subsetting: undefined columns

2011-12-02 Thread Aurélien PHILIPPOT
Dear R-users, -I am new to R, and I am struggling with the following problem. -I am repeating the following operations hundreds of times, within a loop: I want to subset a data frame by columns. I am interested in the columns names that are given by the rows of another data frame that was built i

Re: [R] help in dbWriteTable

2011-12-02 Thread Andreas Borg
Hello, you can fetch the column names of a table with dbListFields and then reorder or rename the data frame according to those. If you want more specific help, provide an example (RSQLite would be a good choice as database engine to make it easily reproducible for others). Best regards, A

Re: [R] R2Cuba package, failed with message ‘Dimension out of range’

2011-12-02 Thread Paul Hiemstra
Hi Sachin, In this mail there is not enough context to provide you with advice. Please read the posting guide: PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. regards, Paul On 12/02/2011 05:09 AM, S

Re: [R] how to get inflection point in binomial glm

2011-12-02 Thread Rubén Roa
René, Yes, to fit a re-parameterized logistic model I think you'd have to code the whole enchilada yourself, not relying on glm (but not nls() as nls() deals with least squares minimization whereas here we want to minimize a minus log binomial likelihood). I did that and have the re-parameteri