[R] Package dependency

Greetings R community, I am making my first package and have run into the need to use other packages. I pass all the checks in the command prompt running Rcmd check package.name. In the Description file I have included: Depends: R (>= 2.13), plotrix Repository: CRAN Now I create the zip

Re: [R] How to transfer variable names to column names?

Hi: Using Michael's example data, here's another approach: x = data.frame(x = 1:5) y = data.frame(y = 1:10) z = data.frame(z = 1:3) # Generate a vector to name the list components nms <- c('x', 'y', 'z') # Combine data frames into a list L <- list(x, y, z) # name them names(L) <- nms # Use lappl

[R] glmnet for Binary trait analysis

Hello, I got an error message saying Error in lognet(x, is.sparse, ix, jx, y, weights, offset, alpha, nobs, : NA/NaN/Inf in foreign function call (arg 5) when I try to analysis a binary trait using glmnet(R) by running the following code library(glmnet) Xori <- read.table("c:\\SNP.txt", s

[R] ARIMA - Skipping intermediate lags

Hello, I am a new R user. I am trying to use the arima command, but I have a question on intermediate lags. I want to run in R the equivalent Stata command of ARIMA d.yyy, AR(5) MA(5 7). This would tell the program I am interested in AR lag 5, MA lag 5, and MA lag 7, all while skipping the inte

[R] Data

Hey everybody, i am using the rugarch-package and its great! I have a pretty easy problem, but i just dont get it, so thanks if you can help me. Normally i use: / data(DATANAME) spec = ugarchspec() fit = ugarchfit(data = x[,1], spec = spec) fit slotNames(fit) names(fit@fit) coef(fit) infocri

[R] adding labels to x,y points

Hi, I am new to R. I have a matrix that I have assigned to the object “colon”. > colon<-read.table("c:\\alon.txt",header=T,row.names=1) attach(colon) names(colon) The dimenstions are 2000 62. Each of the 62 columns (titled norm1, norm2, norm3, etc) has 2000 different numbers (‘continuous’ va

Re: [R] Statistics forums

hi friend i m david if you are having any type of problem in Statistics then do visit http://www.transtutors.com/statistics-homework-help/ it has helped me a lot. thanks. david http://www.transtutors.com/statistics-homework-help/ Transtutors -- View this message in context: http://r.789695.n4.n

Re: [R] NLS error

Also I have this problem that many times the method converges to a local maximum...if I run it a few times, I often get the expected answer. Is there any way to fix this problem by changing the convergence conditions? I have tried changing the nls.control {stats} but hasn't helped much. Any sugges

Re: [R] Specifying Start/End Dates for X-axis Range in plot()/xyplot()

On Sep 20, 2011, at 7:15 PM, Rich Shepard wrote: I'm having difficulty finding the syntax to use to specify the beginning and ending dates for the x-axis while plotting a zoo object. I thought that I had seen a message on this list that used start=as.Date("...") end=as.Date("..."), but I c

[R] Plot map by region using kasc and adehabitat

Dear R-help, I have a raster map which has a measure of profitability of land by parcel over several regions of geographic aggregation (think of counties). This data is stored in an ASCII file. If I type plot(profit) I get a raster map of profit per parcel for all regions. I want to plot sepa

Re: [R] adding labels to x,y points

Actually, you appear to have re-assigned your object “colon” (from "c:\\alon.txt") with a character vector of intended row.names. so use row.names(colon) <-paste("g",c(1:nrow(colon)),sep="") B77S wrote: > > I don't have access to your "alon.txt" file (see ?dput for future posts), > but... >

[R] package / function for monitoring processes?

Hi I recall running across a function a while back which would return information about running processes (such as their cpu and memory usage), but I cannot seem to locate it. Wondering if someone would be kind enough to refresh my memory. I vaguely recall it was parsing the output of the 'ps

Re: [R] Tabulating Baseline Characteristics on specific observations

On Sep 20, 2011, at 7:37 PM, justin jarvis wrote: > That still discards the other data columns. For example, in the > data frame > > V1 V2 V3 V4 > 1 1 1 NA 1 > 2 1 NA 1 1 > 3 1 NA 1 1 > 4 1 11 1 > 5 1 11 1 > > Suppose I was running a regression using V1 and V2. R will r

Re: [R] A question regarding random effects in 'aov' function

If different labs tested different tissue.types, I am not sure you can effectively partition variance between labs(batches) and tissue.types. Weidong Gu On Tue, Sep 20, 2011 at 2:14 PM, karena wrote: > Hi, > > I am doing an analysis to see if these is tissue specific effects on the > gene expres

Re: [R] Strplit code

Look at the help file for do.call. It is most useful when you don't know how many arguments will be given to the function you are calling. E.g., if you know that the list x is always 3 long then you can do rbind(x[[1]], x[[2]], x[[3]]) to make a matrix out of the components, just as do.call

Re: [R] adding labels to x,y points

I don't have access to your "alon.txt" file (see ?dput for future posts), but... I'm pretty sure info you want isn't in row.names(colon[1:2]) it should just be text(x,y, label = colon[1:20]) ?? HTH baumeist wrote: > > Hi, > I am new to R. > > I have a matrix that I have assigned to the o

Re: [R] Tabulating Baseline Characteristics on specific observations

You could use the na.action function on the fitted object to see which observations were omitted. E.g., let's make a data.frame that we can actually do some regressions with and try na.action(): > d <- data.frame(V1=11:15, V2=log(c(1,NA,NA,4,5)), V3=sqrt((-1):3), V4=sin(1:5)) Warning message

Re: [R] Strplit code

Pardon my ignorance, but why is the do.call necessary? why not just execute the rbind function? What's the advantage in putting it in a do.call "wrapper"? On Sep 20, 2011, at 2:44 PM, William Dunlap wrote: > In S+ do.call's first argument must be a character string > that gives the name of

Re: [R] Tabulating Baseline Characteristics on specific observations

That still discards the other data columns. For example, in the data frame V1 V2 V3 V4 1 1 1 NA 1 2 1 NA 1 1 3 1 NA 1 1 4 1 11 1 5 1 11 1 Suppose I was running a regression using V1 and V2. R will remove rows 2 and 3 due to the "NA." I would like a way to look at only th

Re: [R] Works from CLI but not from prompt

Greetings! 2011/9/20 David Winsemius : There is probably an environment/scoping problem as you stated. I am using ESS and org-mode. I started a new R code block and the problem disappeared. Thanks for your kind feedback. Henri-Paul -- Henri-Paul Indiogine Curriculum & Instruction Texas A&

Re: [R] NLS error

Diviya Smith gmail.com> writes: > > I dont think *r* is related to the problem. I am not trying to > estimate *r* and > so basically I am giving the model the correct value of *r* and so log(1-r) > should not go to infinity. > > For test data, I generate data from the same model and add noise

[R] Specifying Start/End Dates for X-axis Range in plot()/xyplot()

I'm having difficulty finding the syntax to use to specify the beginning and ending dates for the x-axis while plotting a zoo object. I thought that I had seen a message on this list that used start=as.Date("...") end=as.Date("..."), but I cannot find that message. I've tried ?plot, ?plotxy, ?pl

Re: [R] Works from CLI but not from prompt

On Sep 20, 2011, at 6:49 PM, Henri-Paul Indiogine wrote: My objective is to define a pattern for a grep() statement. Thanks, Henri-Paul You are not illustrating the problem with enough detail to determine the source of your errors. The errors do not appear when tested in what appears to

Re: [R] Works from CLI but not from prompt

Can you perhaps provide us a minimal working script in which this assignment doesn't happen? If it really is just the line pattern <- "[Aa]ccountability" in the main body of the script, I can't for the life of me guess why it wouldn't work. General keywords that come to mind are things like "envi

Re: [R] Works from CLI but not from prompt

My objective is to define a pattern for a grep() statement. Thanks, Henri-Paul -- Henri-Paul Indiogine Curriculum & Instruction Texas A&M University TutorFind Learning Centre Email: hindiog...@gmail.com Skype: hindiogine Website: http://people.cehd.tamu.edu/~sindiogine _

Re: [R] Works from CLI but not from prompt

Hi Sarah! 2011/9/20 Sarah Goslee : >> What works? Assigning a string to a function, thus replacing the >> function in your search >> path? Bad choice for character variable name on my part. How about this? pattern <- "[Aa]ccountability" If I enter this at the CLI and then type "pattern", R ret

Re: [R] Works from CLI but not from prompt

My apologies: not the name of a function, despite ?regexp having a return value. But the rest of my questions are still relevant. On Tue, Sep 20, 2011 at 6:32 PM, Sarah Goslee wrote: > What works? Assigning a string to a function, thus replacing the > function in your search > path? > > Or is th

Re: [R] Works from CLI but not from prompt

What works? Assigning a string to a function, thus replacing the function in your search path? Or is that what doesn't work? What do you expect? What are you trying to do? Using what commands? Sarah On Tue, Sep 20, 2011 at 6:19 PM, Henri-Paul Indiogine wrote: > Greegings! > > Any idea why this

Re: [R] help in interpreting paired t-test

Further to the plot suggested below, the plot plot(log(A),log(B/A),pch="+",col="blue") reveals an interesting structure to the data. Distinct curved sequences are clearly visible. While their curved form is a consequence of the fact that, for large A, A/B is close to 1 and so they tend to appro

Re: [R] Install Location on Linux Red Hat

On Sep 20, 2011, at 4:02 PM, Darrel Barbato wrote: > Hi, > I'm having some difficulty installing R on our server which is running > RHEL (Red Hat Enterprise Linux) 5.2. I'm using RPM (Red Hat Package > Manager) and by default it installs R in /usr/bin. Unfortunately due > to a very small partition

[R] Works from CLI but not from prompt

Greegings! Any idea why this works from the command line, but not from a source file? This is driving me (more) insane. regexp <- "[Aa]ccountability" Thanks! -- Henri-Paul Indiogine Curriculum & Instruction Texas A&M University TutorFind Learning Centre Email: hindiog...@gmail.com Skype: h

Re: [R] NLS error

I dont think *r* is related to the problem. I am not trying to estimate *r* and so basically I am giving the model the correct value of *r* and so log(1-r) should not go to infinity. For test data, I generate data from the same model and add noise (using *r norm*), with the following parameters -

[R] Can R be installed in a Hyper-V environment?

We are contemplating the installation of R on a Windows server with Hyper-V but we can't find any information on whether it can be done. This transmission is intended solely for the person or organization to whom it is addressed and it may contain privile

[R] Install Location on Linux Red Hat

Hi, I'm having some difficulty installing R on our server which is running RHEL (Red Hat Enterprise Linux) 5.2. I'm using RPM (Red Hat Package Manager) and by default it installs R in /usr/bin. Unfortunately due to a very small partition size, I have run out of space in this directory. I was hoping

[R] tcltk freezes R

Hi there, I have the following problem on my macbook air with mac os x lion on it. when any program tries to load the tcltk library the R GUI or R command line freezes. also happens if I just use library(tcltk) changing versions of tcltk and/or R doesn't help. currently I have the following: R ve

[R] R Programming and Development - EMBL Heidelberg, 28-29 November 2011

Might be of interest to list subscribers: EMBL Advanced Course R Programming and Development EMBL Heidelberg, Germany Monday 28 November - Tuesday 29 November 2011 The course will focus on two aspects of R programming and development. In the first part, we will introduce object-oriented programmi

[R] A question regarding random effects in 'aov' function

Hi, I am doing an analysis to see if these is tissue specific effects on the gene expression data . Our data were collected from 6 different labs (batch effects). lab 1 has tissue type 1 and tissue type 2, lab 2 has tissue 3, 4,5,6. The other labs has one tissue type each. The 'sample' data is as

Re: [R] Multivariate spline regression and predicted values

Thank you for the reply, it looks like the second option (te) will work perfectly! Max On Tue, Sep 20, 2011 at 2:39 PM, Max Farrell wrote: > One possibility is > > library(mgcv) > > ## isotropic thin plate spline smoother > b <- gam(Y~s(X[,1],X[,2])) > predict(b,newdata=list(X=W)) > > ## ten

Re: [R] How to transfer variable names to column names?

The following untested code might also be of some help to you: x = data.frame(x = 1:5) y = data.frame(y = 1:10) z = data.frame(z = 1:3) a = rnorm(50) b = function(x) x^2 makeRowFrame <- function(){ n <- ls(envir = .GlobalEnv) tempFunc <- function(VARIABLE){ VARIABLEM <- get(VARIAB

Re: [R] Strplit code

In S+ do.call's first argument must be a character string that gives the name of the function, so replace do.call(rbind, ...) with do.call("rbind", ...) Bill Dunlap Spotfire, TIBCO Software wdunlap tibco.com From: Santosh [mailto:santosh2...@gmail.com] Sent: Tuesday, September 20, 2011 2:55 AM

Re: [R] NLS error

Diviya Smith wrote on 09/20/2011 01:03:22 PM: > > Hello there, > > I am using NLS for fitting a complex model to some data to estimate a couple > of the missing parameters. The model is - > y ~ (C+((log(1-r))*exp(-A*d)*(-1+r+exp(d*(A-B)))/(r*(-A*d+d*B+log(1-r) > where A, B and C are unknown

Re: [R] How to transfer variable names to column names?

Hi Kelly, c() creates a vector. You need data.frame() instead. dfIntron <- c(mC_Explant=nrow(mC_Explant), mC_Callus=nrow(mC_Callus), mC_RegenPlant=nrow(mC_RegenPlant)) # set colnames simultaneously. Sarah On Tue, Sep 20, 2011 at 2:23 PM, Vining, Kelly wrote: > Hello R users, > I have a set of

Re: [R] Duplicate Rows in xts

Please keep the list in the loop for the archives: The data provided looks like this: V = structure(list(V1 = structure(c(1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L), .Label = "02/22/2011", class = "factor"), V2 = structure(c(1L, 1L, 2L,

[R] How to transfer variable names to column names?

Hello R users, I have a set of data frames for which I am tallying row numbers, as shown below. > nrow(mC_Explant) [1] 14480 > nrow(mC_Callus) [1] 23320 > nrow(mC_RegenPlant) [1] 8108 etc. I want to create a new data frame which has the variable names as column headings, and then a single row

Re: [R] help in interpreting paired t-test

As can be seen by plotting as follows: plot(A,B,pch="+",col="blue") ## The raw data plot(A,B-A,pch="+",col="blue") ## The differences versus A lines(c(0,0.7),c(0,0)) Ted. On 20-Sep-11 17:54:15, Timothy Bates wrote: > Yes, in over 3/4s of the data points A is > B… which suggests the A >

Re: [R] help in interpreting paired t-test

Pedro Mardones wrote on 09/20/2011 12:46:54 PM: > > Dear all; > > A very basic question. I have the following data: > > > > A <- 1/1000*c(347,328,129,122,18,57,105,188,57,257,53,108,336,163, > 62,112,334,249,4

[R] NLS error

Hello there, I am using NLS for fitting a complex model to some data to estimate a couple of the missing parameters. The model is - y ~ (C+((log(1-r))*exp(-A*d)*(-1+r+exp(d*(A-B)))/(r*(-A*d+d*B+log(1-r) where A, B and C are unknown. In order to test the model, I generate data by setting value

Re: [R] help in interpreting paired t-test

On Sep 20, 2011, at 12:46 PM, Pedro Mardones wrote: > Dear all; > > A very basic question. I have the following data: > > > > A <- 1/1000*c(347,328,129,122,18,57,105,188,57,257,53,108,336,163, > 62,112,334,249,

Re: [R] help in interpreting paired t-test

Yes, in over 3/4s of the data points A is > B… which suggests the A measure is reading higher than the B measuring system. length(A[A>B])/length(A) On 20 Sep 2011, at 6:46 PM, Pedro Mardones wrote: > Dear all; > > A very basic question. I have the following data: > >

[R] randomForest - NaN in %IncMSE

Hi I am having a problem using varImpPlot in randomForest. I get the error message "Error in plot.window(xlim = xlim, ylim = ylim, log = "") : need finite 'xlim' values" When print $importance, several variables have NaN under %IncMSE. There are no NaNs in the original data. Can someone hel

[R] ksvm and predict

Hello, I am using the kernlab package to do regression. I have a data frame called Data6 which looks like this: head(Data6) WA PO ZA ZB ZC ZD KL 1 2.955447 6.378324 14.10622 0.134343 0.247120 0.734810 4.05988 2 2.939718 6.344122 14.03528 0.127512 0.

[R] help in interpreting paired t-test

Dear all; A very basic question. I have the following data: A <- 1/1000*c(347,328,129,122,18,57,105,188,57,257,53,108,336,163, 62,112,334,249,45,244,211,175,174,26,375,346,153,32, 89,32,358,202,123,131,88,36,30,

Re: [R] Boxplots from 4 dimensional array

Tarmo Remmel wrote on 09/20/2011 09:51:45 AM: > > Hello list members, > > I am working with simulated data for landscape pattern analysis. I have > 1000 replicates of binary (2 colour) gridded landscapes at each combination > of 9 levels of class proportion and 11 levels of spatial autocorrela

Re: [R] Converting ID Numbers to Unique ID Number

something like this should work: > oldIDs <- c(1234, 1235, 1236) > newIDs <- c(5000, 1234, 7000, 1236) > # really new ones -- don't match the old ones > (reallyNew <- setdiff(newIDs, oldIDs)) [1] 5000 7000 > # assign these back to the oldIDs for the next month > (oldIDs <- c(oldIDs, reallyNew)) [1

Re: [R] Converting ID Numbers to Unique ID Number

A reproducible example would be useful, as yours isn't entirely clear. But maybe something like this? id.info <- data.frame(foreign=sort(unique(foreign.id)), local=1:length(unique(foreign.id))) and then use merge() to combine that with your actual data. Sarah On Tue, Sep 20, 2011 at 11:50 AM,

Re: [R] package documentation of S4 methods

El Gorgonzola hotmail.com> writes: > My question: how do you document methods of S4-classes in a package? > It works fine for the method "show" but it does not work for "showall", > for which I had to define the generic function first. What can I do to > fix this, or is it better to just define

[R] Converting ID Numbers to Unique ID Number

First off, let me apologize for the elementary question. I'm obviously a novice. Here's a stripped version of my problem. March foreign id = 1234, my id = 1 foreign id = 1235, my id = 2 foreign id = 1236, my id = 3 So we are adding new people for April, and things don't necessarily come in order

Re: [R] Problem with legend

Thank you Sarah and Petit bleu for your help. I solved my problem with the code of Sarah. Komine -- View this message in context: http://r.789695.n4.nabble.com/Problem-with-legend-tp3826973p3827461.html Sent from the R help mailing list archive at Nabble.com. _

Re: [R] open source editor for r for beginners

Rstudio and Rcmdr are very popular and for good reason, find a good book while the latter is installing though. IF you are using linux, rkward is fantastic to woRk with. Ken Hutchison On Tue, Sep 20, 2011 at 11:21 AM, Steve Lianoglou < mailinglist.honey...@gmail.com> wrote: > I just w

Re: [R] Help writing basic loop

You did ask for a loop, but if you are willing to consider sapply(), the result you want can be obtained with a single (admittedly long) command: > slope<-sapply(1:100, function(x) lm(c(rnorm(1, mean=.01, sd=.001), rnorm(1, mean=.1, sd=.01))~c(10,400))$coefficients[2]) > head(slope) c(10, 400)

[R] Odp: means across list of data frames

Hi > > I have a list of data frames like the following: > > set.seed(123) > a<- data.frame(x=runif(10), y = runif(10), sample = seq(1,10)) > b<- data.frame(x=runif(10), y = runif(10), sample = seq(1,10)) > L<- list(a,b) > > All data frames in the list have the same dimensions. I need to calcu

Re: [R] Multivariate spline regression and predicted values

One possibility is library(mgcv) ## isotropic thin plate spline smoother b <- gam(Y~s(X[,1],X[,2])) predict(b,newdata=list(X=W)) ## tensor product smoother b <- gam(Y~te(X[,1],X[,2])) predict(b,newdata=list(X=W)) ## variant tensor product smoother b <- gam(Y~t2(X[,1],X[,2])) predict(b,newd

Re: [R] open source editor for r for beginners

I just wanted to second Rstudio: http://rstudio.org/ Honestly, try this first -- it's an easy install, it just works, and there's no real learning curve to the editor itself. Very n00b friendly. -steve On Tue, Sep 20, 2011 at 9:28 AM, R. Michael Weylandt wrote: > RStudio > > > Hope this help

Re: [R] Problem with legend

You're passing a vector of length 3 to the legend argument of legend(), so R is assuming that you have three things you want to display. There are two alternatives: 1. Provide legend() a legend that's a single character vector. 2. Specify that you don't want symbols for the last two of the three l

[R] R: open source editor for r for beginners

Maybe you can use Rcmdr http://socserv.mcmaster.ca/jfox/Misc/Rcmdr/ It is a very easy program. Da: r-help-boun...@r-project.org [r-help-boun...@r-project.org] per conto di Jack Siegrist [jack...@eden.rutgers.edu] Inviato: martedì 20 settembre 2011 16.07 A:

Re: [R] fitting a sinus curve

Dear all, Thanks a lot for the help. It worked very well in the end. Best regards, Marianne -- View this message in context: http://r.789695.n4.nabble.com/fitting-a-sinus-curve-tp3700833p3827044.html Sent from the R help mailing list archive at Nabble.com. ___

Re: [R] Problem with legend

Maybe by adding col=c("grey","white","white"), bg="white but not sure ... Have a nice end of day, Ptit Bleu. -- View this message in context: http://r.789695.n4.nabble.com/Problem-with-legend-tp3826973p3827120.html Sent from the R help mailing list archive at Nabble.com. ___

[R] Multivariate spline regression and predicted values

Hello, I am trying to estimate a multivariate regression of Y on X with regression splines. Y is (nx1), and X is (nxd), with d>1. I assume the data is generated by some unknown regression function f(X), as in Y = f(X) + u, where u is some well-behaved regression error. I want to estimate f(X) via

[R] rtmvnorm performance issues

When sampling from a multi-variate truncated normal using rtmvnorm from the tmvnorm-package, I experience extreme performance differences between two of my computers. On my laptop computer, draws take ~5s, on my desktop ~30s. I need to run MCMCs with repeat calls to rtmvnorm on my desktop. The

[R] Problems using predict from GAM model averaging (MuMIn)

I am struggling to get GAM model predictions from the top models calculated using model.avg in the package "MuMIn". My model looks something like the following: gamp <- gam(log10(y)~s(x1,bs="tp",k=3)+s(x2,bs="tp",k=3)+ s(x3,bs="tp",k=3)+s(x4,bs="tp",k=3)+s(x5,bs="tp",k=3)+ s(x6

[R] means across list of data frames

I have a list of data frames like the following: set.seed(123) a<- data.frame(x=runif(10), y = runif(10), sample = seq(1,10)) b<- data.frame(x=runif(10), y = runif(10), sample = seq(1,10)) L<- list(a,b) All data frames in the list have the same dimensions. I need to calculate the sample means fo

[R] Problem with legend

HI, This code is part of a code I used to do a linear regression: >points(var1~var2,data=Regress,pch=21,bg="grey") >reg11<-lm(var1~var2,data=Regress) >abline(lm(var1~var2,data=Regress),lty=2,lwd=2,col="grey") >legend("topleft",legend= >c("NDII from composite", >"y= 0.0007x - 0.1156",expression(p

[R] Using method = "aic" with pspline & survreg (survival library)

Hi everybody. I'm trying to fit a weibull survival model with a spline basis for the predictor, using the survival library. I've noticed that it doesn't seem to be possible to use the aic method to choose the degrees of freedom for the spline basis in a parametric regression (although it's fine w

Re: [R] open source editor for r for beginners

Marion Wenty wrote: > > ...Could anyone recommend an editor that is suitable for beginners?... > I had trouble with this for a long time. I tried several different programs, but couldn't get any to work properly—they were either too complicated or broken. I recently started using Notepad++ with

[R] Boxplots from 4 dimensional array

Hello list members, I am working with simulated data for landscape pattern analysis. I have 1000 replicates of binary (2 colour) gridded landscapes at each combination of 9 levels of class proportion and 11 levels of spatial autocorrelation. The results are stored in an array as follows: > dim(s

Re: [R] question concerning the acf function

Hi Samir, I do vaguely understand your intention. However I'm not sure taking the mean of acf's makes any sense. I do not know what your final goal is (what do you want to do with the data?) but here is a suggestion. Instead of trying to aggregate acfs computed on different series, why don't you: 1

Re: [R] closeness of codes

Hi Jean and Jim! Thanks for your suggestions. Best, Henri-Paul -- Henri-Paul Indiogine Curriculum & Instruction Texas A&M University TutorFind Learning Centre Email: hindiog...@gmail.com Skype: hindiogine Website: http://people.cehd.tamu.edu/~sindiogine _

Re: [R] open source editor for r for beginners

Marion: You should always first search CRAN for such queries. Had you done so, you would have been led to: http://www.sciviews.org/_rgui/ There is an extensive list of editors/IDE's there. -- Bert On Tue, Sep 20, 2011 at 6:26 AM, Marion Wenty wrote: > Hello all, > > I am looking for an editor

Re: [R] open source editor for r for beginners

On Tue, 20 Sep 2011, Marion Wenty wrote: I am looking for an editor for R which has got functions beyond the normal R editor that is included in the program. I had a look at VIM but I think it's difficult if you are just starting programming. Marion, VIM (Vi) is a line-oriented editor. T

Re: [R] Add a function in rq

On Sep 20, 2011, at 4:50 AM, mael wrote: Hi, I am trying to add a function in a linear quantile regresion to find a breakpoint. The function I want to add is: y=(k+ax)(xB) How do I write it in the rq() function? Do I need to define the parameters in any way and how do

[R] seqinr-dist.alignment?

Hi everyone I have got a quick question: I the "seqinr" package: *dist.alignment(x,"identity")* This is calculating the square root of pairwise distances. Does anyone know whether/how gaps are counted in this function? Thank you. Best wishes, Bettina [[alternative HTML version delet

Re: [R] open source editor for r for beginners

RStudio Hope this helps, Michael Weylandt On Tue, Sep 20, 2011 at 9:26 AM, Marion Wenty wrote: > Hello all, > > I am looking for an editor for R which has got functions beyond the normal > R > editor that is included in the program. > > I had a look at VIM but I think it's difficult if you are

[R] open source editor for r for beginners

Hello all, I am looking for an editor for R which has got functions beyond the normal R editor that is included in the program. I had a look at VIM but I think it's difficult if you are just starting programming. Could anyone recommend an editor that is suitable for beginners? Thanks for your h

[R] Poisson-Gamma computation (parameters and likelihood)

Good afternoon/morning readers. This is the first time I am trying to run some Bayesian computation in R, and am experiencing a few problems. I am working on a Poisson model for cancer rates which has a conjugate Gamma prior. 1) The first question is precisely how I work out the parameters. #Sup

Re: [R] pasting elements of one character vector together

hi eik, mark and sarah, thank you for your help! i was looking for the t-command but in the end the apply-command did the trick. marion 2011/9/20 Sarah Goslee > It isn't entirely clear to me what you want, but here are all the > possibilities > I could think of. I hope one of them does what y

Re: [R] closeness of codes

Jim Lemon wrote on 09/20/2011 04:15:46 AM: > > On 09/19/2011 04:46 PM, Henri-Paul Indiogine wrote: > > Greetings! > > > > I am using the R library RQDA to assign certain codes to paragraphs of > > documents in a collection. Several paragraphs are assigned more than > > 1 code. E.g. often the co

Re: [R] Tabulating Baseline Characteristics on specific observations

On Sep 19, 2011, at 8:49 PM, justin jarvis wrote: I have a data set with many missing observations. When I run a regression, R of course discards the observations (the whole row) that have "NA". I want to tabulate some baseline characteristics (column means) but only for the observations that

[R] predict() of garchFit

Hi, could anyone tell me how predict() predicts the meanError or standardDerivation of a garchFit(1,1)-model, knowing the coefficients mu, omega, alpha1, beta1 and of course all datapoints? Thanks and sorry for my poor english. -- View this message in context: http://r.789695.n4.nabble.com/pred

Re: [R] Displaying str(zoo) in Sweave

On Tue, Sep 20, 2011 at 4:31 PM, Duncan Murdoch wrote: > On 11-09-20 3:08 AM, Ashim Kapoor wrote: > >> Dear R-helpers, >> >> Please look at the following minimal code. >> >> \documentclass[a4paper]{**article} >> \begin{document} >> <<>>== >> library(zoo) >> a<-zoo(1:4,order.by=Sys.time()**+1:4) >>

Re: [R] Problem with converting factors to numbers

On 11-09-20 7:25 AM, _Luc_ wrote: ok great, as.numeric(as.character(data$x)) works perfectly. I am sorry that i did not find this before making this post. @ peter what did not work was: data$x2<- as.character(data$x) data$x3<- as.numeric(data$x2) That should have worked. Can you put togethe

Re: [R] Problem with converting factors to numbers

ok great, as.numeric(as.character(data$x)) works perfectly. I am sorry that i did not find this before making this post. @ peter what did not work was: data$x2 <- as.character(data$x) data$x3 <- as.numeric(data$x2) -- View this message in context: http://r.789695.n4.nabble.com/Problem-with-

Re: [R] Displaying str(zoo) in Sweave

On 11-09-20 3:08 AM, Ashim Kapoor wrote: Dear R-helpers, Please look at the following minimal code. \documentclass[a4paper]{article} \begin{document} <<>>== library(zoo) a<-zoo(1:4,order.by=Sys.time()+1:4) str(a) @ \end{document} When I do R CMD Sweave,followed by pdflatex ,and view the final

Re: [R] R-help Digest, Vol 103, Issue 19

Szeptember 12-től 26-ig irodán kívül vagyok, és az emailjeimet nem érem el. Sürgős esetben kérem forduljon Kárpáti Edithez (karpati.e...@gyemszi.hu). Üdvözlettel, Mihalicza Péter I will be out of the office from 12 till 26 September with no access to my emails. In urgent cases please contact

Re: [R] The CRAN packages webpages are not found

On 09/20/2011 10:57 AM, Achim Zeileis wrote: On Tue, 20 Sep 2011, Tal Galili wrote: I am not sure who to send this to - so I am writing this here. It seems that the "index.html" pages on CRAN are gone. For example: http://cran.r-project.org/web/packages/ggplot2/index.html Is gone. But the dir

Re: [R] pasting elements of one character vector together

It isn't entirely clear to me what you want, but here are all the possibilities I could think of. I hope one of them does what you want. > testmat <- matrix(1:8, ncol=2) > testmat [,1] [,2] [1,]15 [2,]26 [3,]37 [4,]48 > paste(testmat, collapse=" ") [1] "1 2 3 4

[R] Add a function in rq

Hi, I am trying to add a function in a linear quantile regresion to find a breakpoint. The function I want to add is: y=(k+ax)(xB) How do I write it in the rq() function? Do I need to define the parameters in any way and how do I do that? I'm a biologist new to R. Thanks!

Re: [R] pasting elements of one character vector together

Hi marion, just transpose the matrix: mm<-matrix(LETTERS[1:20],nrow=5) paste(t(mm),collapse="") or - if you want the result seperated by rows apply(mm,1,paste,collapse="") cheers Am 20.09.2011 11:55, schrieb Marion Wenty: > I have another question concerning the paste command: > > now instead o

Re: [R] pasting elements of one character vector together

I have another question concerning the paste command: now instead of a vector I would like to paste the elements of a matrix together, which works in the same: Mypastedmatrix <- paste(Mymatrix,collapse="") My problem now is that the program does this BY COLUMN, but I would like to have the eleme

Re: [R] Strplit code

Dear R- Splus experts, In R, I have frequently used do.call with strsplit. and I have a hard time with Splus.. any suggestions? for example, the R code below: do.call(rbind,strsplit(paste(letters[1:10],c(1:10))," ")) Thanks so much, Santosh On Fri, Dec 5, 2008 at 8:51 AM, William Dunlap wrote:

Re: [R] switching off commands within character vector

hello, thank you for your answer! yes, now it is working! marion 2011/9/19 Duncan Murdoch > On 11-09-19 7:30 AM, Marion Wenty wrote: > >> Hello, >> >> could someone help me with this problem?: >> >> I would like to create a latex-script inside of a character vector in >> order >> to being able t

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