Re: [R] selecting significant predictors from ANOVA result

2010-01-28 Thread ram basnet
Dear Sir,   Thanks for your message. My problem is in writing codes. I did ANOVA for 75000 response variables (let's say Y) with 243 predictors (let's say X-matrix) one by one with for loop in R. I stored the p-values of all predictors, however, i have very huge file because i have pvalues of

Re: [R] Merge: sort=F not preserving order?

2010-01-28 Thread Bart Joosen
You could add an extra sequence on the dataframe you wish to sort on. Merge together, sort by the sequence, delete the sequence. It's a bit more work, but it will give you what you want. Bart -- View this message in context:

[R] number of decimal

2010-01-28 Thread Ivan Calandra
Hi everybody, I'm trying to set the number of decimals (i.e. the number of digits after the .). I looked into options but I can only set the total number of digits, with options(digits=6). But since I have different variables with different order of magnitude, I would like that they're all

[R] Problems with fitdistr

2010-01-28 Thread vikrant
Hi, I want to estimate parameters of weibull distribution. For this, I am using fitdistr() function in MASS package.But when I give fitdistr(c,weibull) I get a Error as follows:- Error in optim(x = c(4L, 41L, 20L, 6L, 12L, 6L, 7L, 13L, 2L, 8L, 22L, : non-finite value supplied by

Re: [R] If then test

2010-01-28 Thread claytonmccandless
close, So I have a vector, lets say [1] 1.5 1.2 And a matrix [,1] [,2] [1,] 1.9 1.3 [2,]-.2 2 I want to somehow use the first number in my vector(1.5) and compare this number to my whole first column. So I want to see how many times the numbers in column 11.5 which should be 1 in

Re: [R] Data.frame manipulation

2010-01-28 Thread AC Del Re
Thank you Dennis--this is perfect!! AC On Thu, Jan 28, 2010 at 12:24 AM, Dennis Murphy djmu...@gmail.com wrote: Hi: There are several ways to do this, but these are the most commonly used: aggregate() and the ddply() function in package plyr. (1) plyr solution (using x as the name of your

Re: [R] selecting significant predictors from ANOVA result

2010-01-28 Thread Petr PIKAL
Hi I agree with Bert that what you want to do is, how to say it politely, OK, not reasonable. If p value is significant depends on number of observations. Let assume that they are same for each p value. Then you need your p values in suitable object which you did not reveal to us. Again I

[R] NA Replacement by lowest value?

2010-01-28 Thread Joel Fürstenberg-Hägg
Hi all, I need to replace missing values in a matrix by 10 % of the lowest available value in the matrix. I've got a function I've used earlier to replace negative values by the lowest value, in a data frame, but I'm not sure how to modify it... nonNeg = as.data.frame(apply(orig.df, 2,

Re: [R] RMySQL - Bulk loading data and creating FK links

2010-01-28 Thread Matthew Dowle
How it represents data internally is very important, depending on the real goal : http://en.wikipedia.org/wiki/Column-oriented_DBMS Gabor Grothendieck ggrothendi...@gmail.com wrote in message news:971536df1001271710o4ea62333l7f1230b860114...@mail.gmail.com... How it represents data internally

Re: [R] NA Replacement by lowest value?

2010-01-28 Thread Paul Hiemstra
Joel Fürstenberg-Hägg wrote: Hi all, I need to replace missing values in a matrix by 10 % of the lowest available value in the matrix. I've got a function I've used earlier to replace negative values by the lowest value, in a data frame, but I'm not sure how to modify it... nonNeg =

[R] lpSolve API - add Vs set

2010-01-28 Thread Kohleth Chia
Hi, Using the package lpSolve API, I need to build a 2000*10 constraint matrix. I wonder which method is faster: (a) model = make.lp(0,0) add.constraint(model, ...) or (b) model = make.lp(2000,10) set.constraint(model,...) Thanks KC

Re: [R] NA Replacement by lowest value?

2010-01-28 Thread Joel Fürstenberg-Hägg
Thanks a lot Paul!! Best, Joel Date: Thu, 28 Jan 2010 10:48:37 +0100 From: p.hiems...@geo.uu.nl To: joel_furstenberg_h...@hotmail.com CC: r-help@r-project.org Subject: Re: [R] NA Replacement by lowest value? Joel Fürstenberg-Hägg wrote: Hi all, I need to replace

Re: [R] NA Replacement by lowest value?

2010-01-28 Thread Jim Lemon
On 01/28/2010 08:35 PM, Joel Fürstenberg-Hägg wrote: Hi all, I need to replace missing values in a matrix by 10 % of the lowest available value in the matrix. I've got a function I've used earlier to replace negative values by the lowest value, in a data frame, but I'm not sure how to

Re: [R] NA Replacement by lowest value?

2010-01-28 Thread Joel Fürstenberg-Hägg
Hi Jim, That's what Pauls suggested too, works great! Best, Joel Date: Thu, 28 Jan 2010 20:57:57 +1100 From: j...@bitwrit.com.au To: joel_furstenberg_h...@hotmail.com CC: r-help@r-project.org Subject: Re: [R] NA Replacement by lowest value? On 01/28/2010 08:35 PM, Joel

Re: [R] large integers in R

2010-01-28 Thread Benilton Carvalho
Hi Duncan, On Tue, Jan 26, 2010 at 9:09 PM, Duncan Murdoch murd...@stats.uwo.ca wrote: On 26/01/2010 3:25 PM, Blanford, Glenn wrote: Has there been any update on R's handling large integers greater than 10^9 (between 10^9 and 4x10^9) ? as.integer() in R 2.9.2 lists this as a restriction but

Re: [R] Problems with fitdistr

2010-01-28 Thread Mario Valle
Try to pass a start value to help optim (see ?fitdistr) Ciao! mario vikrant wrote: Hi, I want to estimate parameters of weibull distribution. For this, I am using fitdistr() function in MASS package.But when I give fitdistr(c,weibull) I get a Error as follows:- Error in

Re: [R] large integers in R

2010-01-28 Thread Duncan Murdoch
On 28/01/2010 5:30 AM, Benilton Carvalho wrote: Hi Duncan, On Tue, Jan 26, 2010 at 9:09 PM, Duncan Murdoch murd...@stats.uwo.ca wrote: On 26/01/2010 3:25 PM, Blanford, Glenn wrote: Has there been any update on R's handling large integers greater than 10^9 (between 10^9 and 4x10^9) ?

Re: [R] Maptools runs out of memory installing the help files for spCbind-methods

2010-01-28 Thread Roger Bivand
This has been seen on two ubuntu systems, but cannot be reproduced elsewhere - this is a first report for gentoo. The fix (found by Barry Rowlingson) is to install with R CMD INSTALL --no-latex maptools-blah.tar.gz rather than install.packages(), with the comment that perl was taking all

Re: [R] Problem associated with importing xlsx data file (Excel 2007)

2010-01-28 Thread David Winsemius
On Jan 27, 2010, at 9:41 PM, Steven Kang wrote: Hi all, I have imported xlsx file (Excel 2007) into R using the following scripts. *library(RODBC) * *setwd(...) * *query - odbcConnectExcel2007(xls.file = GI 2010.xlsx, readOnly = TRUE) dat - sqlQuery(query, select * from

[R] Conditional editing of rows in a data frame

2010-01-28 Thread Irene Gallego Romero
Dear R users, I have a dataframe (main.table) with ~30,000 rows and 6 columns, of which here are a few rows: id chr window gene xp.normxp.top 129 1_32 1 32 TAS1R1 1.28882115 FALSE 130 1_32 1 32 ZBTB48 1.28882115 FALSE 131 1_32 1 32

[R] Using tcltk or other graphical widgets to view zoo time series objects

2010-01-28 Thread Research
series objects. Any help would be greatly appreciated. Thanks in advance, Costas __ Information from ESET Smart Security, version of virus signature database 4813 (20100128) __ The message was checked by ESET Smart Security. http://www.eset.com

Re: [R] Using tcltk or other graphical widgets to view zoo time series objects

2010-01-28 Thread Gabor Grothendieck
in advance, Costas __ Information from ESET Smart Security, version of virus signature database 4813 (20100128) __ The message was checked by ESET Smart Security. http://www.eset.com __ R-help@r-project.org mailing list https

Re: [R] RMySQL - Bulk loading data and creating FK links

2010-01-28 Thread Gabor Grothendieck
Its only important internally. Externally its undesirable that the user have to get involved in it. The idea of making software easy to write and use is to hide the implementation and focus on the problem. That is why we use high level languages, object orientation, etc. On Thu, Jan 28, 2010 at

Re: [R] Using tcltk or other graphical widgets to view zoo time series objects

2010-01-28 Thread Felix Andrews
Smart Security, version of virus signature database 4813 (20100128) __ The message was checked by ESET Smart Security. http://www.eset.com __ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read

[R] using function boot

2010-01-28 Thread COURVOISIER Delphine
Dear R Users, I am trying to use the function boot of the boot package to sample from a dataframe of two character variables (N=1127). Each character variable can take five different values. Here is an example of the data: 1 b95-99.9 d25% 2 b95-99.9 a1% 3 b95-99.9

Re: [R] add points to 3D plot using p3d {onion}

2010-01-28 Thread Uwe Ligges
On 27.01.2010 17:50, Viechtbauer Wolfgang (STAT) wrote: Just as an aside, the scatterplot3d package does things like this very cleverly. Essentially, when you create a plot with scatterplot3d, the function actually returns functions with values set so that points3d(), for example, knows the

Re: [R] Conditional editing of rows in a data frame

2010-01-28 Thread David Winsemius
On Jan 28, 2010, at 7:05 AM, Irene Gallego Romero wrote: Dear R users, I have a dataframe (main.table) with ~30,000 rows and 6 columns, of which here are a few rows: id chr window gene xp.normxp.top 129 1_32 1 32 TAS1R1 1.28882115 FALSE 130 1_32 1

[R] AFT-model with time-varying covariates and left-truncation

2010-01-28 Thread Philipp Rappold
Dear Prof. Broström, Dear R-mailinglist, first of all thanks a lot for your great effort to incorporate time-varying covariates into aftreg. It works like a charm so far and I'll update you with detailled benchmarks as soon as I have them. I have one more questions regarding Accelerated

Re: [R] Conditional editing of rows in a data frame

2010-01-28 Thread Gabor Grothendieck
If DF is your data frame then: DF$xp.bg - ave(DF$xp.norm, DF$gene, FUN = min) will create a new column such that the entry in each row has the minimum xp.norm of all rows with the same gene. ave does use split internally but I think it would be worth trying anyways since its only one short

Re: [R] Problems with fitdistr

2010-01-28 Thread Peter Ehlers
Do you have any zeros in your data? fitdistr() will need start values (see the code), but even with start values, optim() will have problems. x - rweibull(100, 2, 10) fitdistr(x, weibull) ## no problem fitdistr(c(0,x), weibull) ## your error message fitdistr(c(0,x),

Re: [R] Constrained vector permutation

2010-01-28 Thread Jason Smith
Andrew Rominger ajrominger at gmail.com writes: I'm trying to permute a vector of positive integers 0 with the constraint Hi Andy I'm not sure if you are explicitly wanting to use a sampling approach, but the gtools library has a permutations function (found by ??permutation then ?

Re: [R] RMySQL - Bulk loading data and creating FK links

2010-01-28 Thread Matthew Dowle
Are you claiming that SQL is that utopia? SQL is a row store. It cannot give the user the benefits of column store. For example, why does SQL take 113 seconds in the example in this thread : http://tolstoy.newcastle.edu.au/R/e9/help/10/01/1872.html but data.table takes 5 seconds to get the

Re: [R] number of decimal

2010-01-28 Thread Peter Ehlers
?formatC ?sprintf Ivan Calandra wrote: Hi everybody, I'm trying to set the number of decimals (i.e. the number of digits after the .). I looked into options but I can only set the total number of digits, with options(digits=6). But since I have different variables with different order of

Re: [R] Constrained vector permutation

2010-01-28 Thread Jason Smith
I just realized I read through your email too quickly and my script does not actually address the constraint on each permutation, sorry about that. You should be able to use the permutations function to generate the vector permutations however. Jason

[R] Print lattice output to table?

2010-01-28 Thread GL
I have beautiful box and whisker charts formatted with lattice, which is obviously calculating summary statistics internally in order to draw the charts. Is there a way to dump the associated summary tables that are being used to generate the charts? Realize I could use tapply or such to get

[R] Setting breaks for histogram of dates

2010-01-28 Thread Loris Bennett
Hi, I have a list of dates like this: date 2009-12-03 2009-12-11 2009-10-07 2010-01-25 2010-01-05 2009-09-09 2010-01-19 2010-01-25 2009-02-05 2010-01-25 2010-01-27 2010-01-27 ... and am creating a histogram like this t - read.table(test.dat,header=TRUE)

[R] select one row from data-frame by name, indirectly (as string)

2010-01-28 Thread Oliver
Hello, say I have a dataframe x and it contains rows like ch_01, ch_02 and so on. How can I select those channels iundirectly, by name? I tried to select the data with get() but get() seems only to work on simple variables? Or how to do it? I need something like that: name1 - ch_01 name2

Re: [R] select one row from data-frame by name, indirectly (as string)

2010-01-28 Thread Oliver
OK, now it works... just using [ and ] or [[ and ]] works. I thought have tried it before... why does it workj now and not before? hmhh sorry for the traffic __ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE

Re: [R] select one row from data-frame by name, indirectly (as string)

2010-01-28 Thread David Winsemius
On Jan 28, 2010, at 10:04 AM, Oliver wrote: OK, now it works... just using [ and ] or [[ and ]] works. I thought have tried it before... why does it workj now and not before? Provide your console session and someone can tell you. Failing that, you are asking us to read your mind.

Re: [R] number of decimal

2010-01-28 Thread Ivan Calandra
It looks to me that it does more or less the same as format(). Maybe I didn't explain myself correctly then. I would like to set the number of decimal by default, for the whole R session, like I do with options(digits=6). Except that digits sets up the number of digits (including what is

Re: [R] Print lattice output to table?

2010-01-28 Thread Deepayan Sarkar
On Thu, Jan 28, 2010 at 6:25 AM, GL pfl...@shands.ufl.edu wrote: I have beautiful box and whisker charts formatted with lattice, which is obviously calculating summary statistics internally in order to draw the charts. Is there a way to dump the associated summary tables that are being used

[R] make a grid with longitude, latitude and bathymetry data

2010-01-28 Thread karine heerah
hi, i have a longitude vector (x) a latitude vector (y) and a matrix of bathymetry (z) with the dimensions (x,y). I have already succeeded in plotting it with the image.plot (package 'field') and the contour functions. But now, I want to make a grid in order to extract easily the bathymetry

Re: [R] Print lattice output to table?

2010-01-28 Thread GL
That works great. Thanks! -- View this message in context: http://n4.nabble.com/Print-lattice-output-to-table-tp1375040p1380862.html Sent from the R help mailing list archive at Nabble.com. __ R-help@r-project.org mailing list

Re: [R] Conditional density plot in lattice

2010-01-28 Thread Deepayan Sarkar
On Fri, Jan 22, 2010 at 2:08 AM, Dieter Menne dieter.me...@menne-biomed.de wrote: Deepayan Sarkar wrote: With a restructuring of the data: df1 = data.frame(x=0:n, y1=((0:n)/n)^2, y2=1-((0:n)/n)^2, age=young) df2 = data.frame(x=0:n, y1=((0:n)/n)^3, y2=1-((0:n)/n)^3, age=old) df =

[R] color palette for points, lines, text / interactive Rcolorpicker?

2010-01-28 Thread Michael Friendly
I'm looking for a scheme to generate a default color palette for plotting points, lines and text (on a white or transparent background) with from 2 to say 9 colors with the following constraints: - red is reserved for another purpose - colors should be highly distinct - avoid light colors (like

[R] grid.image(), pckg grid

2010-01-28 Thread Markus Loecher
While I am very happy with and awed by the grid package and its basic plotting primitives such as grid.points, grid.lines, etc, I was wondering whether the equivalent of a grid.image() function exists ? Any pointer would be helpful. Thanks ! Markus [[alternative HTML version deleted]]

[R] exporting multidimensional matrix from R

2010-01-28 Thread Gopikrishna Deshpande
Hi, I have a matrix of size 19x512x20 in R. I want to export this file into another format which can be imported into MATLAB. write.xls or write.table exports only one dimension. please send a code if possible. I am very new to R and have been struggling with this. Thanks ! Gopi

Re: [R] number of decimal

2010-01-28 Thread Peter Ehlers
Ivan Calandra wrote: It looks to me that it does more or less the same as format(). Maybe I didn't explain myself correctly then. I would like to set the number of decimal by default, for the whole R session, like I do with options(digits=6). Except that digits sets up the number of digits

Re: [R] plotting additive ns components

2010-01-28 Thread Thomas Lumley
On Wed, 27 Jan 2010, David Winsemius wrote: On Jan 27, 2010, at 9:09 PM, GlenB wrote: I have an additive model of the following form : zmdlfit - lm(z~ns(x,df=6)+ns(y,df=6)) I can get the fitted values and plot them against z easily enough, but I also want to both obtain and plot the two

Re: [R] number of decimal

2010-01-28 Thread Marc Schwartz
Ivan, The default behavior for print()ing objects to the console in an R session is via the use of the print.* methods. For real numerics, print.default() is used and the format is based upon the number of significant digits, not the number of decimal places. There is also an interaction with

Re: [R] large integers in R

2010-01-28 Thread Thomas Lumley
On Thu, 28 Jan 2010, Benilton Carvalho wrote: Hi Duncan, On Tue, Jan 26, 2010 at 9:09 PM, Duncan Murdoch murd...@stats.uwo.ca wrote: On 26/01/2010 3:25 PM, Blanford, Glenn wrote: Has there been any update on R's handling large integers greater than 10^9 (between 10^9 and 4x10^9) ?

Re: [R] number of decimal

2010-01-28 Thread Ivan Calandra
First things first: thanks for your help! I see where the confusion is. With formatC and sprintf, I have to store the numbers I want to change into x. I would like a way without applying a function on specific numbers because I can shorten the numbers that way, but it won't give me more

Re: [R] number of decimal

2010-01-28 Thread Peter Ehlers
Looks like I didn't read your post carefully enough. If you want some sort of global option to set the display of numbers from any operation performed by R then that's not likely to be possible without capturing all output and formatting it yourself. As the saying goes 'good luck with that'.

Re: [R] number of decimal

2010-01-28 Thread David Winsemius
On Jan 28, 2010, at 10:55 AM, Marc Schwartz wrote: Ivan, The default behavior for print()ing objects to the console in an R session is via the use of the print.* methods. For real numerics, print.default() is used and the format is based upon the number of significant digits, not the

Re: [R] number of decimal

2010-01-28 Thread Ivan Calandra
I guess the easiest solution for me would therefore be to set options(digits) to a high number, and then round down if I need to! Thanks you both for your input! Ivan Le 1/28/2010 17:02, Peter Ehlers a écrit : Looks like I didn't read your post carefully enough. If you want some sort of

[R] RMySQL install

2010-01-28 Thread Robert Schneider
Hi everyone, I am trying to install the RMySQL package under windows xp. I've got the MySQL installed on the computer (MySQL server 5.1). I went through the steps presented on the webpage http://biostat.mc.vanderbilt.edu/wiki/Main/RMySQL and googled around and still can't find the answer.

Re: [R] number of decimal

2010-01-28 Thread Peter Ehlers
Ivan, Now I'm no longer sure of just what you want. Are you concerned about the *internal* handling of numbers by R or just about the *printing* of numbers? As Marc has pointed out, internally R will use the full precision that your input allows. Perhaps you're using the F-value from the output

[R] Recoding Variables in R

2010-01-28 Thread Mathew, Abraham T
VAR 980490 Some people have suggested placing new limits on foreign imports in order to protect American jobs. Others say that such limits would raise consumer prices and hurt American exports. Do you FAVOR or OPPOSE placing new limits on imports, or haven't you thought much about this?

Re: [R] Data.frame manipulation

2010-01-28 Thread AC Del Re
Thank you, Dennis and Petr. One more question: when aggregating to one es per id, how would I go about keeping the other variables in the data.frame (e.g., keeping the value for the first row of the other variables, such as mod2) e.g.: # Dennis provided this example (notice how mod2 is removed

[R] Setting base level for contrasts with lme

2010-01-28 Thread Marcin Kozak
Hi all, Note: lm(Yield ~ Block + C(Variety, base = 2), Alfalfa) equals i - 2; lm(Yield ~ Block + C(Variety, base = i), Alfalfa) However, lme(Yield ~ C(Variety, base = 2), Alfalfa, random=~1|Block) which is fine, does not equal i - 2; lme(Yield ~ C(Variety, base = i), Alfalfa, random=~1|Block)

Re: [R] tapply on multiple groups

2010-01-28 Thread David Winsemius
On Jan 28, 2010, at 10:26 AM, GL wrote: Can you make tapply break down groups similar to bwplot or such? Example: Data frame has one measure (Days) and two Dimensions (MM and Place). All have the same length. length(dbs.final$Days) [1] 3306 length() [1] 3306 length() [1]

Re: [R] Recoding Variables in R

2010-01-28 Thread John Fox
Dear Abraham, If I follow correctly what you want to do, the following should do it: f - factor(c(1, 1, 5, 5, 8, 8, 9, 9, 0, 0)) f [1] 1 1 5 5 8 8 9 9 0 0 Levels: 0 1 5 8 9 recode(f, '1'=3; '5'=1; '0'=2; else=NA ) [1] 3311NA NA NA NA 22 Levels: 1 2 3 I think that

Re: [R] RMySQL - Bulk loading data and creating FK links

2010-01-28 Thread Gabor Grothendieck
I think one would only be concerned about such internals if one were primarily interested in performance; otherwise, one would be more interested in ease of specification and part of that ease is having it independent of implementation and separating implementation from specification activities.

Re: [R] tapply on multiple groups

2010-01-28 Thread Gigi Lipori
Thanks. My mistake was that I used c(dbs.final$Days,dbs.final$Place) instead of list(... when I tried to follow that part of the documentation. David Winsemius dwinsem...@comcast.net 1/28/2010 11:49 AM On Jan 28, 2010, at 10:26 AM, GL wrote: Can you make tapply break down groups similar

[R] weighted least squares vs linear regression

2010-01-28 Thread DispersionMap
I need to find out the difference between the way R calculates weighted regression and standard regression. I want to plot a 95% confidence interval around an estimte i got from least squares regression. I cant find he documentation for this ive looked in ?stats ?lm ?predict.lm ?weights

Re: [R] number of decimal

2010-01-28 Thread Marc Schwartz
On Jan 28, 2010, at 10:04 AM, David Winsemius wrote: On Jan 28, 2010, at 10:55 AM, Marc Schwartz wrote: Ivan, The default behavior for print()ing objects to the console in an R session is via the use of the print.* methods. For real numerics, print.default() is used and the format

Re: [R] exporting multidimensional matrix from R

2010-01-28 Thread David Winsemius
On Jan 28, 2010, at 10:42 AM, Gopikrishna Deshpande wrote: Hi, I have a matrix of size 19x512x20 in R. No, you don't. Matrices are only 2 dimensional in R. You may have an array, however. I want to export this file into another format which can be imported into MATLAB. write.xls or

Re: [R] number of decimal

2010-01-28 Thread David Winsemius
On Jan 28, 2010, at 12:08 PM, Marc Schwartz wrote: On Jan 28, 2010, at 10:04 AM, David Winsemius wrote: On Jan 28, 2010, at 10:55 AM, Marc Schwartz wrote: Ivan, The default behavior for print()ing objects to the console in an R session is via the use of the print.* methods. For real

Re: [R] weighted least squares vs linear regression

2010-01-28 Thread Bert Gunter
You'll probably need to consult a suitable text on linear models/applied regression, as this is a statistics, not an R question -- or look for a suitable tutorial on the web. You might also try one of the statistics mailing lists or Google on some suitable phrase. Bert Gunter Genentech

Re: [R] Data.frame manipulation

2010-01-28 Thread Dennis Murphy
Hi: On Thu, Jan 28, 2010 at 8:40 AM, AC Del Re de...@wisc.edu wrote: Thank you, Dennis and Petr. One more question: when aggregating to one es per id, how would I go about keeping the other variables in the data.frame (e.g., keeping the value for the first row of the other variables, such

Re: [R] Problems with fitdistr

2010-01-28 Thread J. R. M. Hosking
vikrant wrote: Hi, I want to estimate parameters of weibull distribution. For this, I am using fitdistr() function in MASS package.But when I give fitdistr(c,weibull) I get a Error as follows:- Error in optim(x = c(4L, 41L, 20L, 6L, 12L, 6L, 7L, 13L, 2L, 8L, 22L, : non-finite value

[R] qplot themes

2010-01-28 Thread evgeny55
Hi, I'm having trouble editing the qplot layout. I'm using the geom=tile option and I want to do a few things: 1. move the vertical and horizontal gridlines so that they appear on the edge of each tile (right now they're in the middle) 2. bring the gridlines to the foreground and change their

[R] question about reshape

2010-01-28 Thread Dana TUDORASCU
Hello everyone, I have a bit of a problem with reshape function in R. I have simulated some normal data, which I have saved in 4 vectors. y.1,y.2,y.3,y.4 which I combined a dataset: datasetcbind(y1,y2,y3,y4). I have also generated some subject id number, and denoted that by subject. So, my

Re: [R] Interpolation

2010-01-28 Thread stephen sefick
Why not look into the zoo package na.approx? And related functions. On Thu, Jan 28, 2010 at 11:29 AM, ogbos okike ogbos.ok...@gmail.com wrote: Happy New Year. I have a data of four columns - year, month, day and count. The last column, count, contains some missing data which I have to replace

Re: [R] question about reshape

2010-01-28 Thread Henrique Dallazuanna
Try this: ong-reshape(as.data.frame(dataset), idvar=subject, v.names=response, varying=list(2:5), direction=long) or dataset - cbind.data.frame(y1, y2, y3, y4) On Thu, Jan 28, 2010 at 3:07 PM, Dana TUDORASCU dana...@gmail.com wrote:  Hello everyone,  I have a bit of a problem with reshape

Re: [R] Interpolation

2010-01-28 Thread Ravi Varadhan
The warning message simply indicates that you have more than one data point with the same x value. So, `approx' collapses over the dulicate x values by averaging the corresponding y values. I am not sure if this is your problem - it doesn't seem like it. It is doing what seems reasonable for a

Re: [R] RMySQL - Bulk loading data and creating FK links

2010-01-28 Thread Matthew Dowle
I'm talking about ease of use to. The first line of the Details section in ?[.data.table says : Builds on base R functionality to reduce 2 types of time : 1. programming time (easier to write, read, debug and maintain) 2. compute time Once again, I am merely saying that the

Re: [R] weighted least squares vs linear regression

2010-01-28 Thread DispersionMap
sorry, i ommited some important information. this is a documentation question! i meant to ask how to find out how R calculates the standard error and how it differs between the two models -- View this message in context:

Re: [R] grid.image(), pckg grid

2010-01-28 Thread Paul Murrell
Hi Markus Loecher wrote: While I am very happy with and awed by the grid package and its basic plotting primitives such as grid.points, grid.lines, etc, I was wondering whether the equivalent of a grid.image() function exists ? No. But a simple implementation based on grid.rect() is not

Re: [R] RMySQL - Bulk loading data and creating FK links

2010-01-28 Thread Gabor Grothendieck
Regarding the explanation of where the time goes it might be parsing the statement or the development of the query plan. The SQL statement for the more complex query is obviously much longer and its generated query plan involves 95 lines of byte code vs 19 lines of generated code for the simpler

Re: [R] Constrained vector permutation

2010-01-28 Thread Andrew Rominger
Hi Jason, Thanks for you suggestions, I think that's pretty close to what I'd need. The only glitch is that I'd be working with a vector of ~30 elements, so permutations(...) would take quite a long time. I only need one permutation per vector (the whole routine will be within a loop that

Re: [R] using functions with multiple arguments in the apply family

2010-01-28 Thread Peter Ehlers
chipmaney wrote: typically, the apply family wants you to use vectors to run functions on. However, I have a function, kruskal.test, that requires 2 arguments. kruskal.test(Herb.df$Score,Herb.df$Year) This easily computes the KW ANOVA statistic for any difference across years However, my

Re: [R] selecting significant predictors from ANOVA result

2010-01-28 Thread Ista Zahn
Hi Ram, As others have pointed out, writing the code is the least of your problems. In case this isn't sinking in, try the following exercise: set.seed(10) P - vector() DF - as.data.frame(matrix(rep(NA, 10), nrow=100)) names(DF) - c(paste(x,1:999, sep=), y) for(i in 1:1000) { DF[,i] -

[R] navigation panel with help

2010-01-28 Thread Edwin Sun
All, I installed the lastest version of R 2.10.1. On the help page for a specific function, it turns out that the vertical navigation panel on the left does not appear anymore. For example, ?lm The help page from this command is a page without navigation panel (which I prefer to use). I

Re: [R] question about reshape

2010-01-28 Thread Dana TUDORASCU
Thank you very much everybody. That worked. Dana On Thu, Jan 28, 2010 at 12:23 PM, Henrique Dallazuanna www...@gmail.comwrote: Try this: ong-reshape(as.data.frame(dataset), idvar=subject, v.names=response, varying=list(2:5), direction=long) or dataset - cbind.data.frame(y1, y2, y3, y4)

Re: [R] navigation panel with help

2010-01-28 Thread Duncan Murdoch
On 28/01/2010 3:15 PM, Edwin Sun wrote: All, I installed the lastest version of R 2.10.1. On the help page for a specific function, it turns out that the vertical navigation panel on the left does not appear anymore. For example, ?lm The help page from this command is a page without

Re: [R] navigation panel with help

2010-01-28 Thread Changyou Sun
Duncan, Thank you for your quick reply. Do we users have any options to change that? I personally become addicted to the navigation panel and feel it is kind of table of contents. Regards, Edwin Sun -Original Message- From: Duncan Murdoch [mailto:murd...@stats.uwo.ca] Sent:

Re: [R] navigation panel with help

2010-01-28 Thread Duncan Murdoch
On 28/01/2010 3:22 PM, Changyou Sun wrote: Duncan, Thank you for your quick reply. Do we users have any options to change that? I personally become addicted to the navigation panel and feel it is kind of table of contents. You could downgrade to 2.9.2, but you'd lose all the other new

Re: [R] Constrained vector permutation

2010-01-28 Thread Jason Smith
It wouldn't be guaranteed to produce any usable permutation, but it seems like it would be much faster and so could be repeated until an acceptable vector is found.  What do you think? Thanks-- Andy I think I am not understanding what your ultimate goal is so I'm not sure I can give you

Re: [R] color palette for points, lines, text / interactive Rcolorpicker?

2010-01-28 Thread Greg Snow
I don't know of any existing palettes that meet your conditions, but here are a couple of options for interactive exploration of colorsets (this is quick and dirty, there are probably some better orderings, base colors, etc.): colpicker - function( cols=colors() ) { n - length(cols)

[R] Data frame of different sized lists in a function call

2010-01-28 Thread Jonathan Greenberg
I'm hoping to get some best practice feedback for constructing a function call which takes an undefined set of DIFFERENT length vectors -- e.g. say we have two lists: list1=c(1:10) list2=c(2:4) lists = data.frame(list1,list2) coerces those two to be the same length (recycling list2 to fill

Re: [R] weighted least squares vs linear regression

2010-01-28 Thread David Winsemius
On Jan 28, 2010, at 2:14 PM, DispersionMap wrote: sorry, i ommited some important information. this is a documentation question! i meant to ask how to find out how R calculates the standard error and how it differs between the two models Luke, Use the Code!. -- View this

Re: [R] Data frame of different sized lists in a function call

2010-01-28 Thread David Winsemius
On Jan 28, 2010, at 4:03 PM, Jonathan Greenberg wrote: list1=c(1:10) # neither of which really are lists list2=c(2:4) lists = list(list1,list2) $ a list of two vectors. David Winsemius, MD Heritage Laboratories West Hartford, CT __

Re: [R] Data frame of different sized lists in a function call

2010-01-28 Thread Greg Snow
If you understand the differences between R lists and R vectors then this should be easy: vec1 - 1:10 vec2 - 2:4 myListOfVectors - list( vec1, vec2 ) Now you can pass the single list of 2 different sized vectors to your function. For more details on working with lists (and vectors and

[R] Error on using lag function

2010-01-28 Thread anna
Hello everyone, I have a vector P and I want to replace each of its missing values by its next element, for example: P[i] = NA -- P[i] = P[i+1] To do this I am using the replace() and lag() functions like this: P - replace(as.ts(P),is.na(as.ts(P)),as.ts(lag(P,1))) but here is the error that I

[R] hist - unevenly spaced bars

2010-01-28 Thread Worik R
I am sure this is trivial, but I cannot solve it. I make a histogram. There are 5 categories 1,...,5 and 80 values and the histogram does not evenly space the bars. Bars 1 and 2 have no space between them and the rest are evenly spaced. How can I get all bars evenly spaced? The code: Q5

Re: [R] optimization challenge

2010-01-28 Thread Greg Snow
Well, Albyn Jones gave a great solution to my challenge that found the best reading schedule. My original thought was that doing an exhaustive search would take too much time, but Albyn showed that there are ways to do it efficiently. My approach (as mentioned before) was to use optim with

Re: [R] Error on using lag function

2010-01-28 Thread Peter Ehlers
Does this help: library(zoo) na.locf(P, fromLast=TRUE) You'll have to decide what to do if the last value is NA. -Peter Ehlers anna wrote: Hello everyone, I have a vector P and I want to replace each of its missing values by its next element, for example: P[i] = NA -- P[i] = P[i+1] To do

Re: [R] hist - unevenly spaced bars

2010-01-28 Thread Peter Ehlers
Well, your bars are not unevenly spaced; you just have some zero-count intervals. Time to learn about the str() function which will tell you what's going on. zh - hist(your_code) str(zh) zh$breaks zh$counts You could set breaks with hist(..., breaks=0:5 + .5) But a histogram doesn't seem like

Re: [R] Error on using lag function

2010-01-28 Thread anna
Hi Peter, thank you for helping. The thing is don't want to it replace it with the last value but with the next value - Anna Lippel -- View this message in context: http://n4.nabble.com/Error-on-using-lag-function-tp1399935p1401319.html Sent from the R help mailing list archive at

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