[R] help:parLapply error

Dear all: I use R(version 3.2.2)'s parallel processing code as follows: cat("parall cal rtic:",nListLink, ",params:",length(arimaPreParams),"start...","\n") cl <- makeCluster(getOption("cl.cores", 12)); system.time({ res <-

[R] Appropriate specification of random effects structure for EEG/ERP data: including Channels or not?

Dear r-help list, I work with EEG/ERP data and this is the first time I am using LMM to analyze my data (using lme4). The experimental design is a 2X2: one manipulated factor is agreement, the other is noun (agreement being within subjects and items, and noun being within subjects and between

Re: [R] doubt with Odds ratio - URGENT HELP NEEDED

Dear Rosa It would help if you posted the error messages where they occur so that we can see which of your commands caused which error. However see comment inline below. On 22/09/2015 22:17, Rosa Oliveira wrote: Dear all, I’m trying to compute Odds ratio and OR confidence interval. I’m

[R] Error: pandoc version 1.12.3 or higher is required and was not found

I am trying to use R Markdown, but call to render() gives me an error: Error: pandoc version 1.12.3 or higher is required and was not found. As I understand [http://yihui.name/knitr/demo/pandoc/] pandoc is a function defined in knitr, which I have installed and it has pandoc() function defined.

Re: [R] Running R on a hosting o server

On Tue, Sep 22, 2015 at 2:55 PM, bgnumis bgnum wrote: > Hi all, > > Hope I can Explain: > > I want to "run" online some function (code written by me) so that this code > "saves" an output file on my server and my html webpage read the file R > plots and save (really manually I

Re: [R] Unexpected/undocumented behavior of 'within': dropping variable names that start with '.'

> Hadley Wickham > on Sun, 20 Sep 2015 14:23:43 -0400 writes: > The problem is that within.data.frame calls as.list.environment with > the default value of all.names = FALSE. I doubt this is a deliberate > feature, and is more likely to be a minor

[R] Issues fitting Gompertz-Makeham model to mortality data

Good evening, I have a very basic knowledge of how to use R and am struggling with my code to fit a Gompertz-Makeham model to data. The code and error message is as follows: > data <- hmd.mx("AUS","mkeas...@hotmail.com","1Mrkqazwsx", "country") Warning message: In hmd.mx("AUS",

Re: [R] Error: pandoc version 1.12.3 or higher is required and was not found

> On Sep 23, 2015, at 6:13 AM, Ryszard Czermiński > wrote: > > I am trying to use R Markdown, but call to render() gives me an error: > Error: pandoc version 1.12.3 or higher is required and was not found. > > As I understand [http://yihui.name/knitr/demo/pandoc/]

Re: [R] retaining characters in a csv file

Thanks for all for the comments, I hadn't intended to start a war. My summary: 1. Most important: I wasn't missing something obvious. This is always my first suspicion when I submit something to R-help, and it's true more often than not. 2. Obviously (at least it is now), the CSV

Re: [R] Error: pandoc version 1.12.3 or higher is required and was not found

On 23/09/2015 7:13 AM, Ryszard Czermiński wrote: > I am trying to use R Markdown, but call to render() gives me an error: > Error: pandoc version 1.12.3 or higher is required and was not found. > > As I understand [http://yihui.name/knitr/demo/pandoc/] pandoc is a function > defined in knitr,

Re: [R] doubt with Odds ratio - URGENT HELP NEEDED

Dear Rosa Can you remove all the code which is not relevant to calculating the odds ratio so we can see what is going on? On 23/09/2015 16:06, Rosa Oliveira wrote: Dear Michael, I found some of the errors, but others I wasn’t able to. And my huge huge problem concerns OR and OR confidence

[R] How to config the RStudio

Dear useRs, 1) how to configure the plot command into windows device by default in RStudio? 2) in layout panels, how to config for one panel to start in "minimized mode" ? (i would like to see only the "Environment panel" opened and only the headers of the other panel) when start RStudio.

Re: [R] [FORGED] Re: Compare two normal to one normal

Hi Rolf: I have read a decent amount about the AIC but that was a long, long time ago. I too am no expert on it and John should read some of the AIC literature John: There's one whole supposedly great text just on AIC but I don't have it. Link is here. Of course, it's absurdly expensive but

Re: [R] [FORGED] Error from lme4: "Error: (p <- ncol(X)) == ncol(Y) is not TRUE"

In reply to Rolf Turner and Jean Adams who have been helping me: This does appear to be an issue with NA values in the non-factor variables. In the (non-reproducible) example below, we can see that removing the NAs solves the problem. However, from what I can see to this point, there does not

Re: [R] retaining characters in a csv file

> -Original Message- > From: r.tur...@auckland.ac.nz > Sent: Wed, 23 Sep 2015 13:26:58 +1200 > To: pda...@gmail.com .. > I would say that this phenomenon ("Excel does it") is *overwhelming* > evidence that it is bad practice!!! :-) Fortune?

[R] reproducing Graphpad IC50 in R with drc package

I've been banging my head against the wall a bit with this and would be ecstatic if someone could help. Initial data: Response Dose 1 285.17 0.125 2 377.65 0.250 3 438.99 0.500 4 338.46 1.000 5 227.87 2.000 6 165.96 0.010 7 302.92 0.125 8 418.50

[R] Progress bar in random forest model

Hi , I am using randomForest model in R . For large number of tree my program takes long time to complete . In "randomForest" function i can use "do.trace=TRUE" to see the real time progress . Sample out put in real time on R console is as follows ntree OOB 1 2 3 4

[R] Sampling the Distance Matrix

Dear All, Suppose you have a distance matrix stored like a dist object, for instance x<-rnorm(20) y<-rnorm(20) mm<-as.matrix(cbind(x,y)) dst<-(dist(mm)) Now, my problem is the following: I would like to get the rows of mm corresponding to points whose distance is always larger of, let's say,

Re: [R] doubt with Odds ratio - URGENT HELP NEEDED

Dear Michael, I found some of the errors, but others I wasn’t able to. And my huge huge problem concerns OR and OR confidence interval :( New Corrected code: casedata <-read.spss("tas_05112008.sav") tas.data<-data.frame(casedata) #Delete patients that were not

[R] Running R on a hosting o server

> Hi all, > > Hope I can Explain: > > I want to "run" online some function (code written by me) so that this code > "saves" an output file on my server and my html webpage read the file R > plots and save (really manually I would run R function, open Filezilla, and > pass the output png o jpg

[R] get lm by file .cvs

well i have info<-read.csv(file, header=T) and i want try thatmodel<-lm(info[1]~info[2]) is for metod backward selection but i don't know how thanks for help [[alternative HTML version deleted]] __

Re: [R] retaining characters in a csv file

On 9/23/2015 5:57 AM, Therneau, Terry M., Ph.D. wrote: Thanks for all for the comments, I hadn't intended to start a war. My summary: 1. Most important: I wasn't missing something obvious. This is always my first suspicion when I submit something to R-help, and it's true more often than

Re: [R] [FORGED] Error from lme4: "Error: (p <- ncol(X)) == ncol(Y) is not TRUE"

Hi Rolf,Yes, a reprodicuble example would be good - but it appears to be trouble with something within the data, and I cannot upload all the data here. Jean indicated the issue could be with NAs in the data, and I am inclined to agree. I will look more into that angle and see if something

Re: [R] [FORGED] Re: Compare two normal to one normal

On 23/09/15 16:38, Mark Leeds wrote: John: After I sent what I wrote, I read Rolf's intelligent response. I didn't realize that there are boundary issues so yes, he's correct and my approach is EL WRONGO. I feel very not good that I just sent that email being that it's totally wrong. My

Re: [R-es] Leer datos desde un puerto udp y/o desde un puerto serie

Hola Antonio. A ver si esto puede dirigirte en la dirección correcta http://tolstoy.newcastle.edu.au/R/help/05/09/12210.html Básicamente hace un scan al puerto en cuestión con algo parecido a esto: scan(file="/dev/ttyS0",n=1,what="character") Un saludo, Miguel. El 23/09/2015 a las

Re: [R-es] Leer datos desde un puerto udp y/o desde un puerto serie

Hola, Antonio: ¡Dichosos barcos! Yo personalmente he encontrado bastantes dificultades con NMEA (y otros) a través de UDP, es un pequeño dolor. Por lo que he visto de R, el problema puede residir en que las opciones posibles para conectar a sockets (socketConnection, make.socket) no

Re: [R] Loading data chartseries

On Tue, Sep 22, 2015 at 3:10 PM, bgnumis bgnum wrote: > Hi all, > > I want to plot this data on file.txt that has this format > > 01/01/2000;970,1877 > 02/01/2000;970,2224 > 03/01/2000;969,0336 > 04/01/2000;958,3023 > 05/01/2000;952,8527 > > I´m trying to plot with quantmode

Re: [R] Sampling the Distance Matrix

I think the OP wanted rows where all values were greater than .9. If so, this works: > set.seed(42) > dst <- dist(cbind(rnorm(20), rnorm(20))) > dst2 <- as.matrix(dst) > diag(dst2) <- NA > idx <- which(apply(dst2, 1, function(x) all(na.omit(x)>.9))) > idx 13 18 19 13 18 19 > dst2[idx, idx]

Re: [R] get lm by file .cvs

On Sep 23, 2015, at 10:09 AM, raoman ramirez wrote: > well i have info<-read.csv(file, header=T) > and i want try thatmodel<-lm(info[1]~info[2]) > is for metod backward selection but i don't know how Can you explain why you want to apply backward selection to a model with a single predictor

Re: [R] [FORGED] Error from lme4: "Error: (p <- ncol(X)) == ncol(Y) is not TRUE"

On 24/09/15 01:57, Rory Wilson wrote: In reply to Rolf Turner and Jean Adams who have been helping me: This does appear to be an issue with NA values in the non-factor variables. In the (non-reproducible) example below, we can see that removing the NAs solves the problem. However, from what I

Re: [R] Error: pandoc version 1.12.3 or higher is required and was not found

On Sep 23, 2015, at 4:13 AM, Ryszard Czermiński wrote: > I am trying to use R Markdown, but call to render() gives me an error: > Error: pandoc version 1.12.3 or higher is required and was not found. > > As I understand [http://yihui.name/knitr/demo/pandoc/] pandoc is a function > defined in

Re: [R] Sampling the Distance Matrix

> mm <- cbind(1/(1:5), sqrt(1:5)) > d <- dist(mm) > d 1 2 3 4 2 0.6492864 3 0.9901226 0.3588848 4 1.250 0.6369033 0.2806086 5 1.4723668 0.8748970 0.5213550 0.2413050 > which(as.matrix(d)>0.9, arr.ind=TRUE) row col 3 3 1 4 4 1 5 5 1 1 1 3 1

[R] Error of matrix and dimnames when using SVM in R

Hi all! I am having problems with using SVM in R I have a data frame `trainData` which contains 198 rows and  looks like Matchup Win HomeID AwayID A_TWPCT A_WST6 A_SEED B_TWPCT B_WST6 B_SEED2010_1115_1457   1   1115   1457   0.531  5 16   0.567  4 16 2010_1124_1358   1   1124  

Re: [R] Compare two normal to one normal

On Tue, 22 Sep 2015, John Sorkin wrote: Charles, I am not sure the answer to me question, given a dataset, how can one compare the fit of a model of the fits the data to a mixture of two normal distributions to the fit of a model that uses a single normal distribution, can be based on the

Re: [R] reproducing Graphpad IC50 in R with drc package

On Sep 23, 2015, at 9:21 AM, Jon Arsenault wrote: > I've been banging my head against the wall a bit with this and would be > ecstatic if someone could help. > > Initial data: > > Response Dose > 1 285.17 0.125 > 2 377.65 0.250 > 3 438.99 0.500 > 4 338.46 1.000 > 5

Re: [R] Error: pandoc version 1.12.3 or higher is required and was not found

I guess the confusion here is the relationship between knitr::pandoc() and rmarkdown::render(). The error message you saw was from rmarkdown::render(), which requires Pandoc 1.12.3. The easiest way to go to use rmarkdown (I mean the R package rmarkdown) is to use RStudio, and you don't even need

[R-es] seleccionar y eliminar con drop1

estoy haciendo una funcion para el metodo de seleccion hacia atras o eliminacion hacia atrasdonde recibo un archivo .csv mi duda es como usar el drop1 para elegir que modelo es el siguientese que esta algo enredado, pero espero se medio entiendan y puedan ayudarme un poco