[R] RStudio install

Dear all, I download RStudio and install it,but I donnot know why I cannot see the upload icon in the Files window? Could you please help me? Thank you. Xiaocong [[alternative HTML version deleted]] __ R-help@r-project.org mailing list

Re: [R] Obtaining a derivative of nls() SSlogis function

Thank you to all who have made great suggestions. Both Gabor and David's methods work well for me. I see now where I was going wrong with this, I wasn't loading it to a function. I also did not know expression could be used in that way. Thank you very much for your help! Katrina On Fri, Nov 18,

[R] How to make a program for decision curve?

Hi all R users: I am a freshman in R. Recently,we are using our clinical data to externaly validate two exist nomograms.We would like to use decision curve and net benefits to distinguish which is more efficient,but we donot know how to produce a program for it.So I require help for the

Re: [R] Permutations

You are correct, Michael! I had (rashly) assumed that Gyanendra's error message was the result of asking for the factorial of a number which was too large, without checking it against the limits. I then embarked on a discussion of large-nymber problems in R as relevant to his type of query. My

Re: [R] cca with repeated measures

Thanks again Gavin!, this is very clear and enlightening, vegan is an amazing package! It's a pleasure to use it. the best, René -- Dr. René Mayer Email: ma...@psychologie.tu-dresden.de Research Assistant Phone: +49-351-463-34568 Department of Psychology

[R] Ask for help on Error() model

Hi there, I have a experimental design as following: P A B Y 1 1 1 1 -0.18524045 2 1 1 2 -1.64226232 3 2 2 1 -0.51342697 4 2 2 2 -0.29684874 5 3 3 1 0.71566733 6 3 3 2 -1.06097480 7 4 4 1 0.05772670 8 4 4 2 0.99316677 9 5 1 1 -0.61860414 10 5 1 2 0.50257548

[R] wald test: compare quantile regression estimators from different samples

Dear all, I am trying to compare the estimated coefficients of a quantile regression model between two different samples. It is a Wald test, but I cannot find one way to do that in R.The samples are collected conditional on a specific characteristic and I would like to test whether such

[R] ANOVA and LSD TEST - contrasting results

Dear all, concerne to my issue, I obtained different results between ANOVA and LSD TEST (agricolae package), and I ask me why anova - aov(SS ~ Treatment*Lot) summary(anova) DfSum Sq Mean Sq F value Pr(F) Treatment 7 0.534 7.622e-06 1.107 0.374 Lot

Re: [R] wald test: compare quantile regression estimators from different samples

Dear Julia, One approach would be to fit a combined model for the two samples, with a factor (say, sample) and all interactions between sample and the other predictors -- something like rq(y ~ sample*(x1 + x2 + etc.)) -- and then compare via anova() to the additive model rq(y ~ sample + x1 + x2 +

[R] Eclipse StatET - create own code formatting

Hello, does anybody know whether it is possible to create its own code formatting rules? Defining rules under Eclipse - Preferences - R Code Formatting is so limited. Cheers, Syrvn -- View this message in context:

Re: [R] RStudio install

I don't either. You might have better luck communicating with the developers through their website, the one you likely downloaded RStudio from. --- Jeff NewmillerThe . . Go Live...

Re: [R] ANOVA and LSD TEST - contrasting results

Roberto, Please be more specific. What are the differences between ANOVA and LSD that give you concern? John John David Sorkin M.D., Ph.D. Chief, Biostatistics and Informatics University of Maryland School of Medicine Division of Gerontology Baltimore VA Medical Center 10 North Greene Street

Re: [R] extract positions from matrix

Here's one approach: A=matrix(1:15,5) B=matrix(15:29,5) C=matrix(30:44,5) do.call(cbind, lapply(c(A,B,C),function(x) get(x)[c(1,5),1])) Michael On Thu, Nov 17, 2011 at 9:44 PM, .Jpg jporob...@gmail.com wrote: Hi everyone, I tried to solve this problem but I could not find the solution. I

Re: [R] Eclipse StatET - create own code formatting

Hi Syrvn, On 11/19/2011 03:08 PM, syrvn wrote: does anybody know whether it is possible to create its own code formatting rules? Defining rules under Eclipse - Preferences - R Code Formatting is so limited. There is a dedicated mailing list for StatET here

Re: [R] Permutations

As I believe I've said to you before, please cc the list in your replies. And as Ted said: So, Gyanendra, what *exactly* is the question? Then it would perhaps be possible to locate the source of the error message. Or, if the question was indeed as I originally assumed it to be, what was the

Re: [R] the standard error of the quantile

In small to moderate sample sizes, the Harrell-Davis quantile estimator is more accurate than the ordinary sample quantile, and there is a good standard error estimator for it using U-statistics. See the hdquantile function in the Hmisc package. Frank swatch110362 wrote: hi~ I need to

Re: [R] extract positions from matrix

On Nov 19, 2011, at 9:32 AM, R. Michael Weylandt wrote: Here's one approach: A=matrix(1:15,5) B=matrix(15:29,5) C=matrix(30:44,5) do.call(cbind, lapply(c(A,B,C),function(x) get(x)[c(1,5),1])) Also: sapply( list(A,B,C), function(x) do.call([, list(x, c(1,5))) ) Notice that this actually

Re: [R] ANOVA and LSD TEST - contrasting results

First of all, thank you for the reply to my topic. Anova summary has shown no significative difference into Treatment (Pr 0.374), otherwise LSD Test has shown difference between 2 Treatment. I suppose that's something strange. Roberto -- View this message in context:

Re: [R] the standard error of the quantile

Thanks for your help. But I need to estimator the standard error of the quantile in survival analysis, because my data is censored. For example~ T-c(84,240,261,332,348,437,521,565) S-c(0,1,1,0,1,0,1,0) ##0 for censoed; 1 for event G-rep(1,8) ori_s.surv-survfit(Surv(T,S)~G) -- View this

Re: [R] cannot set the path to installed R packages when building a package vignette

On 19.11.2011 00:14, Vincent Plagnol wrote: Dear colleagues, I am having issues trying to build a R package I recently wrote. I am using R 2.14.0 and my package depends on another package called aod. Running: R CMD Sweave vignette.Rnw is perfectly fine and the vignette compiles properly. but

Re: [R] extract positions from matrix

Folks: David: I believe your approach needs to be modified to accommodate hundreds of matrices per the OP's specification. However, I would say that this is exactly the situation in which arrays should be used. Not only does it appear simpler, but it also could be faster since once the array is

Re: [R] Producing plot using polygon function

On 18.11.2011 23:48, avinash barnwal wrote: Hi, I am looking forward to fill the plot using conditions on variables a2 and a3. Whenever variable(a2) goes above variable(a3) i fill it with some color . I am storing the coordinates of a2 and a3 in x and y as well as time where it is occurring

Re: [R] R: writing data from one matrix into another with keeping NA's

On 18.11.2011 18:06, Karl Weinmayer wrote: Hi, I am looking to build even quintiles for a set of data. I managed to get it done, but I would like to know if there is a more direct way to write the data from my loop output x in the bottom of the code into the empty matrix p1, which I filled

Re: [R] Delete Rows Dynamically Within a Loop

1. Perhaps it is easier to explain what the result should be than explaining your algorithm. There may be an easier approach to it. 2. Your code is not reproducible for us, since we do not have the full data nor disc, radius, . Uwe Ligges On 18.11.2011 02:20, ftonini wrote: Ok guys,

Re: [R] Producing plot using polygon function

Hi, Thanks for realizing my mistakes Sorry for the typo mistakes, first i m storing the array then doing the operations. But that is not my issue, i m suppose to fill the area of plot wherever a2a3 . May be through polygon it would be tough to complete . Looking for some hep through ggplot2

Re: [R] Producing plot using polygon function

On 19.11.2011 20:19, avinash barnwal wrote: Hi, Thanks for realizing my mistakes Sorry for the typo mistakes, first i m storing the array then doing the operations. But that is not my issue, i m suppose to fill the area of plot wherever a2a3 . May be through polygon it would be tough to

Re: [R] cannot set the path to installed R packages when building a package vignette

Uwe, thanks it worked just fine. I think I was confused by the fact that .Rprofile sets the library path properly when I use R interactively or it BATCH mode but I need to set my R_LIBS (in .Renviron worked for me) when I use R CMD build. In any case it fixes my problem so many thanks again,

Re: [R] extract positions from matrix

On Nov 19, 2011, at 1:15 PM, Bert Gunter wrote: Folks: David: I believe your approach needs to be modified to accommodate hundreds of matrices per the OP's specification. I suggested that my approach was most applicable if the questioner had his matrices already in a list. (He didn't say,

Re: [R] the standard error of the quantile

Then see the latter part of my note. I think also that, at least for the median, the survival package will compute it more quickly for inclusion in a bootstrap loop. Note that you forgot to state require(survival) or library(survival) below. Frank swatch110362 wrote: Thanks for your help.

[R] persp() problem

Hi, and thanks in advance for any assistance, I'm new to R and to this mailing list, and am having trouble with the * persp()* function. I've got a matrix (z) of values for various combinations of x and y, each of which is a set of (0, 5, 10, 15, 20). But when I try * persp(x,y,z)*, I get an

[R] O/T] regression data set

Dear R People: There is a regression data set in which there are 4 sets of data and the x values are the same in all 4. The y values change somewhat. I thought it was the Longley data set, but that is US economic data. Does anyone know the name of that other set, please? Thanks, Erin --

Re: [R] O/T] regression data set

On 19.11.2011 22:21, Erin Hodgess wrote: Dear R People: There is a regression data set in which there are 4 sets of data and the x values are the same in all 4. The y values change somewhat. I thought it was the Longley data set, but that is US economic data. Does anyone know the name of

Re: [R] persp() problem

On Nov 19, 2011, at 3:19 PM, John Benning wrote: Hi, and thanks in advance for any assistance, I'm new to R and to this mailing list, and am having trouble with the * persp()* function. I've got a matrix (z) of values for various combinations of x and y, each of which is a set of (0, 5,

[R] XIII Meeting GRASS and GFOSS in Italy

Dear mailing list, I'd like to inform you about XIII Meeting GRASS and GFOSS, that will take place from 15th to 17th February 2012 at University of Trieste (edificio H3, aula magna) in Trieste (Italy). The meeting will involve both GRASS users both open source software and data users. More

Re: [R] persp() problem

Your call to persp() is fine, and works just fine for me. Obviously there is something funny about your data (x, y, and z). They must not be numeric (despite appearances). There is something you haven't told us here; how did you obtain/construct x, y, and z? Try the following: x - y -

Re: [R] persp() problem

The trailing space (instead of '0') in the third line of the printout of z, the fact that the decimal points are not aligned in the columns, and the left- justification of the column labels are hints that z is not a matrix of numbers, but just prints something like one. * z* * [,1] [,2]

Re: [R] tip: large plots

Another few data points, just for the heck of it. This is on a 2.66GHz Intel Core Duo iMac. Rgames system.time(plot(runif(1e6),runif(1e6))) user system elapsed 34.405 0.079 34.432 Rgames system.time(plot(runif(1e6),runif(1e6),pch='.')) user system elapsed 12.602 0.032 12.596

[R] Advice on recoding a variable depending on another which contains NAs

Dear colleagues, I would be very grateful for your help with the following. I have banged my head off this question several times in the past, and repeatedly over the last week. I have looked in the usual places and found no obvious solution. I fear that this just means I didn't recognize

Re: [R] Advice on recoding a variable depending on another which contains NAs

On Nov 19, 2011, at 6:31 PM, Anthony Staines wrote: Dear colleagues, I would be very grateful for your help with the following. I have banged my head off this question several times in the past, and repeatedly over the last week. I have looked in the usual places and found no obvious

Re: [R] Advice on recoding a variable depending on another which contains NAs

Ah, so that's how ifelse gets used... Presumably if I had more than 2 non-missing values in the control variable, I could use it several times. Thank you very much, for a really useful answer, and thanks for getting back so quickly! All the best, Anthony Staines On 11/19/11 23:55, David

Re: [R] Advice on recoding a variable depending on another which contains NAs

No, you use it once and it does the whole vector at once. --- Jeff NewmillerThe . . Go Live... DCN:jdnew...@dcn.davis.ca.usBasics: ##.#. ##.#. Live Go...

Re: [R] extract positions from matrix

Inline below. -- Bert On Sat, Nov 19, 2011 at 1:06 PM, David Winsemius dwinsem...@comcast.net wrote: On Nov 19, 2011, at 1:15 PM, Bert Gunter wrote: Folks: David: I believe your approach needs to be modified to accommodate hundreds of matrices per the OP's specification. I suggested that

[R] Data analysis: normal approximation for binomial

Dear R experts, I am trying to analyze data from an article, the data looks like this Patient Age Sex Aura preCSM preFreq preIntensity postFreq postIntensity postOutcome 1 47 F A 4 6 9 2 8 SD 2 40 F A/N 5 8 9 0 0 E 3 49 M N 5 8 9 2 6 SD 4 40 F A 5 3 10 0 0 E 5 42 F N 5 4 9 0 0 E 6 35 F N 5 8 9

[R] NA handling in tree package

Dear R-List, Is there any way to handle NA's within tree objects themselves in terms of the predict.tree( )? I understand that if there is an NA at a split in a certain variable, the prediction is classified at that node and not dropped further down the tree. Are there any other and

Re: [R] Data analysis: normal approximation for binomial

Hi, I am not clear what your goal is. There is a variety of data there. You could look at t-test differences in preIntensity broken down by sex, you could use regression looking at postIntensity controlling for preIntensity and explained by age, you could Why are you analyzing data from an

Re: [R] Fitting a Weibull Distribution

I think the function you're looking for is fitdistr in the MASS package. You can find most MLEs there. -- View this message in context: http://r.789695.n4.nabble.com/Fitting-a-Weibull-Distribution-tp892609p4087698.html Sent from the R help mailing list archive at Nabble.com.

[R] Function gives numeric(0) for every input

Hi, I am trying to code buffons needle in R for a class This is my code w/ output from R, if anyone could tell me why this is happening it would be amazing, I can generate correct results without putting the steps into a function but alas that is the assignment. buffon = function(n){ + x =

[R] place values into a matrix efficiently?

This question attacked me as I was thinking about matrix value updates. I probably will never need to do this, but wanted to ask if there are efficient methods to perform the for-loop in the following sequence. %xymat-matrix(rep(0,100) nr=10,nc=10) # empty matrix %x-1:10

Re: [R] Function gives numeric(0) for every input

Though it seems a pity to even hint, what value have you assigned to phat and what is the value returned when the function runs? On Saturday, November 19, 2011 18:52:20 alex_janssen wrote: Hi, I am trying to code buffons needle in R for a class This is my code w/ output from R, if anyone

Re: [R] place values into a matrix efficiently?

On 20/11/11 16:27, Carl Witthoft wrote: This question attacked me as I was thinking about matrix value updates. I probably will never need to do this, but wanted to ask if there are efficient methods to perform the for-loop in the following sequence. %xymat-matrix(rep(0,100) nr=10,nc=10) #

Re: [R] Function gives numeric(0) for every input

Well, you assign numeric(0) or numeric(0)+1, which is still numeric(0). No wonder the return value is always numeric(0). You probably need to replace numeric(0) simply by 0. Numeric(0) does not mean 0, it means a numeric vector of length zero (i.e., empty). HTH, Peter On Sat, Nov 19, 2011 at

[R] write.arff function in package foreign can't handle Date time

Hi, x1 - c(as.Date(20110101,%Y%m%d),as.Date(2012-01-01,%Y-%m-%d)); x2 - c(1,2); ddf - data.frame(x=x1,y=x2); ddf[[y]] - as.factor(ddf[[y]]) write.arff(ddf, file=D:/ddf.arff) Content of ddf.arff is @relation ddf @attribute x numeric @attribute y {'1','2'} @data 2011-01-01,'1'

Re: [R] Function gives numeric(0) for every input

Also, vectorize this puppy - that's how you really get the best performance out of R, but in this case it will easily get rid of your problem. Michael On Nov 19, 2011, at 11:31 PM, Peter Langfelder peter.langfel...@gmail.com wrote: Well, you assign numeric(0) or numeric(0)+1, which is still

[R] ICC - IntraClass Correlation Error

Hi, I'm trying to run a ICC calculation on a data frame. I get the following error message: Error in data.frame(x.s, subs = rep(paste(S, 1:n.obs, sep = ), nj)) : arguments imply differing number of rows: 1700, 1750 I've looked at the data in the file and it seems to be okay. Any thoughts

Re: [R] Data analysis: normal approximation for binomial

Hi Colin, I have never heard of a binomial distribution z statistic with (or without for that matter) a continuity correction, but I am not a statistician. Other's may have some ideas there. As for other ways to analyze the data, I skimmed through the article and brought the data and played

Re: [R] Function gives numeric(0) for every input

Hi Alex, Michael is correct that vectorizing this is the way to go. Since this is for class and vectorizing requires a bit of thought, I am not going to demonstrate it with your function; however, here are some very minor changes you can make that give fairly substantial performance increases.

Re: [R] ICC - IntraClass Correlation Error

Hi, There are several things that would be helpful for us to help you. First off, please do read the posting guide: PLEASE do read the posting guide http://www.R-project.org/posting-guide.html a reproducible example will do wonders for your chances of getting a clear, easy to understand