similar to: apply: new behaviour for factors in R-2.4.0

Dear R-list I have a question concerning the argument "adjustSigma" in the function "lme" of the package "nlme". The help page says: "the residual standard error is multiplied by sqrt(nobs/(nobs - npar)), converting it to a REML-like estimate." Having a look into the code I found: stdFixed <- sqrt(diag(as.matrix(object$varFix))) if (object$method

Dear R core team Using the following code produces an empty plot (similar to col = NA): > plot(1:9, col = factor(rep(1:3,3), labels = c("red", "blue", "black"))) My question: Shouldn't one get at least a warning (or an error) if one tries to use a factor as col argument? Thanks for an answer. Regards, Christoph Buser

Hi I just started using RGui.exe under widnows. I have a text file containing date arranged in columns and rows, each column has the same format, each row with different formats. 3 of the columns are something like this 1/12/2006 3:59:45 PM I need to calculate the different in seconds between 2 selected periods using their row’s index My solution: Read the file in a data frame and

Dear R-users I have a problem choosing initial points for the function arms() in the package HI I intend to implement a Gibbs sampler and one of my conditional distributions is nonstandard and not logconcave. Therefore I'd like to use arms. But there seem to be a strong influence of the initial point y.start. To show the effect I constructed a demonstration example. It is reproducible

Hello everbody, i'm currently using the anova()-test for a small data.frame of 40 rows and 2 columns. It works well, but is there any preconditions for a valid variance analysis, that i should consider? Thank you for your answer, Daniel

Hi all, I just want to understand how R computes p-value in a simple linear regression model? The reason is that in Matlab in the function which "evaluate standard errors for multivariate normal regression", it just provide estimates and standard errors, without giving out p-value, It computes t-statistics as follows: abs(beta_hat/std_beta_hat) how to go further to get p-value?

Hy all, I apologize i've used rownames instead of colnames in my first exemple. (that's why i changed the mail object) I was on mars when i wrote my question... Every answer where correct ... but, because i've made a wrong question, people wern't able to understand... So finally i'm speaking about colnames : Let's be more precise: I've got a query that gives me for

hi list, i have to ask you again, having tried and searched for several days... i want to do a TukeyHSD after an Anova, and want to get the adjusted p-values after the Tukey Correction. i found the p.adjust function, but it can only correct for "holm", "hochberg", bonferroni", but not "Tukey". Is it not possbile to get adjusted p-values after

Good morning, I used in R contr.sum for the contrast in a lme model: > options(contrasts=c("contr.sum","contr.poly")) > Septo5.lme<-lme(Septo~Variete+DateSemi,Data4.Iso,random=~1|LieuDit) > intervals(Septo5.lme)$fixed lower est. upper (Intercept) 17.0644033 23.106110 29.147816 Variete1 9.5819873 17.335324 25.088661 Variete2 -3.3794907 6.816101 17.011692 Variete3

Please, is there any R-list about survival package ? Thanks Mauricio

useRs, A no doubt simple question, but I am baffled. Indeed, I think I once knew the answer, but can't recover it. The default contrasts for aov (and lm, and...) are contr.treatment and contr.poly for unordered and ordered factors, respectively. But, how does one invoke the latter? That is, in a data.frame, how does one indicate that a factor is an *ordered* factor such that

Has anyone implemented a t-test with the effective sample size correction proposed by Dale and Fortin, Ecoscience 9(2):162-167, 2002, using a discussion by Cressie, 1993, page 15? thanks, Denis

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hi all, I wish to draw on the same graphic device 3 functions. But i don't want them to be on different graph, i want to compare them on the same I don't need mfrow or mfcol, I need something else... 1 graph on 1 device inside this graph 3 ploted function. I saw something unsing data.frame, but i think it's overkill, and something less complicated must exist, if not why? why not

Hi In mixed-model with lme() How can I obtain Type II SS or Type III SS for fixed effect? Thanks Julien

Hi, I'm studying math, and i have to make an analysys using Randomised Block Design. I have two factors, i know how to do this in Statistica, but how to do this in R, i read some manuals but the only thing that i have found was 2 factor ANOVA. Please could someone help me, or give some usefull links ?? Krzytsztof Suwada

Hi All. I need a bit of help extracting the residual error variance from the VarCorr structure from lmer. #Here's a 2-way random effects model lmer.1 <- lmer(rating ~ (1|person)+(1|rater), data = dat) #Get the structure vc.fit <- VarCorr(lmer.1) #results in..... $person 1 x 1 Matrix of class "dpoMatrix" (Intercept) (Intercept) 0.7755392 $rater 1 x 1 Matrix

Hi, I have a model with differents observations Xi. Each observation belongs to a group, either A or B. I would like to minimize a fonction like : sum( Xi - Z)^2 + sum (Xi - aZ -b)^2 A B The first sum contains all observations from group A and the second all observations from group B. I want to find the Z-value wich minimize this function. a and b are predefined parameters.

Hi, I use anova() to find interaction effect and then I need to find data with main effect from those data with interaction effect. How to do that? I used : anova(lm(data~factor1*factor2)), then select data with interaction effect. Then I need to select those data also with main effect of factor1 or factor2, from previous selected data. How to do that? Many thanks for your time on my

Hey, I'm generating a .jpeg file for a web application passing parameters to R via cgi. R gets the parameters by using commandArgs, which are passed to a variable named j and z j<-commandArgs()[3] z<-commandArgs()[4] Later I want to use the characters strings of the argument which the variables are holding for my filename, e.g.: jpeg(file="d:/data/images/jz.jpeg",...)