similar to: publishing random effects from lme

Dear all, Suppose I have a linear mixed-effects model (from the package nlme) with nested random effects (see below); how would I present the results from the random effects part in a publication? Specifically, I?d like to know: (1) What is the total variance of the random effects at each level? (2) How can I test the significance of the variance components? (3) Is there something like an

Dear all, for my diploma thesis I have to import huge XML-Files into R for statistical processing - huge means a size about 33 MB. I'm using the XML-Package version 1.9 As far as reading the complete file into R via xmlTreeParse doesn't work or is too slow, I'm trying to use xmlEventParse but I got completely stuck. I have many different type of nodes + <configuration>

1. If your code actually runs, you should upgrade R, and quit using `_' for assignment... 8-) 2. You seem to have an extraneous `]' after the na.exclude. Could that be the problem? Andy > From: Christoph Scherber > > actually, the situation is much more complicated. I am producing > multiple graphs within a "for" loop. For some strange reason, the >

Hi I'm sorry about the triviality of my problem. I have a vector (v) of three columns (logA, logB, id). I want to compute (and plot) the correlation between logA and logB for different thresholds of id (e.g. >30, etc). So I tried: for(i in 1:100){ points(cor(v$logA[v$id>i], v$logB[v$id>i], use="complete.obs"), i)) } (i created a plot object already) but it comes with

Hi all, given this example #start a<-c(0,70,50,100,70,650,1300,6900,1780,4930,1120,700,190,940, 760,100,300,36270,5610,249680,1760,4040,164890,17230,75140,1870,22380,5890,2430) length(a) b<-c(0,0,10,30,50,440,1000,140,70,90,60,60,20,90,180,30,90, 3220,490,20790,290,740,5350,940,3910,0,640,850,260) length(b) out<-ks.test(log10(a+1),log10(b+1)) # max distance D

Dear R users, according the help(log), the function log2(x) should give the natural logarithm of x. I expect in case of x=2 to to get 0.6931, however, R gives me 1 as a result. Similar, logb(2,2) gives 1 again. I'm wondering if I have missed something ? Yours Frank -- Frank Mattes, MD e-mail: f.mattes at ucl.ac.uk Department of Virology fax 0044(0)207 8302854 Royal Free Hospital

Is there an R-language interface to the R API C-language functions Rf_logspace_add() and Rf_logspace_sub()? I don't see one but I may not looking under the right name. Various packages have functions which do that same sort of thing (log(exp(x)+exp(y)) and log(exp(x)-exp(y)) without unnecessary floating point errors). They have names like matrixStats::logSumExp(lx, na.rm=FALSE, ...)

Is there any way to know how the "dmvt" function computes the hypergeometric function needed in the calculation for the density of multivariate t distribution? -- View this message in context: http://r.789695.n4.nabble.com/hypergeometric-function-in-mvtnorm-tp4483730p4483730.html Sent from the R help mailing list archive at Nabble.com.

Dear R-users, I am using R 2.13.0 and rms 3.3-0 , but can not reproduce figure 7.8 of the handouts *Regression Modeling Strategies* ( http://biostat.mc.vanderbilt.edu/wiki/pub/Main/RmS/course2.pdf) by the following code. Could any one help me figure out how to solve this? setwd('C:/Rharrell') require(rms) load('data/counties.sav') older <- counties$age6574 + counties$age75

Dear R users, I don't know how to compute an exponential model like this: proc=a*exp(b*cls), or proc=a*exp(b*cls)+c*exp(d*cls). Please help me to solve this problem! Thank you! My data is: row.names proc cls 1 0.5 452.616206 0.5 2 1 255.864021 1.0 3 1.5 150.885316 1.5 4 2 86.289600 2.0 5 2.5 56.321559 2.5 6 3 39.504444 3.0 7 3.5 25.570308 3.5 8 4 5.382726 4.0 -- --- Catalin-Constantin

Survfit had a bug in some prior releases due to the use of both unique(times) and table(times); I fixed it by rounding to 15 digits per the manual page for as.character. Yes, I should ferret out all the usages instead, but this was fast and it cured the user's problem. The bug is back! A data set from a local colleage triggers it. I can send the rda file to anyone who wishes. The

Dear All, According to the Sturges rule, the number of classes of a histogram is the closest integer to 1 + logb(n,base=2) where n is the number of observations. The function hist(), by default, uses the Sturges rule. However, the code x <- 1:200 hist(x) produces a histogram with 10 classes and not 9 classes as determined by the Sturges rule. What am I missing? Thanks in advance, Paul

[ Not sure why, but the first time I sent this it never seemed to go through; apologies if you're seeing this twice ... ] I have some fully functional code that I'm guessing can be done better/quicker with some savvy R vector tricks; any help to make this run a bit faster would be greatly appreciated; I'm particularly stuck on how to calculate using "row-wise" vectors

What is wrong in the following nested if-else statements: if (Condition_1) { # begin IF_1 statement_1 statement_2 statement_3 if (Condition_2) { # begin IF_2 a<- a +1 } # end IF_2 statement_4 statement_5 statement_6 statement_7 if (Condition_3) {

I have a MLE task that for a small number of parameters finishes in a reasonable amount of time, but for my "real" case (with 17 parameters to be estimated) either takes far too long (over a day), or fails with "computationally singular" errors. So a) are there any parallel implementations of optim() (in R or otherwise) and b) how can I make my function more robust?

Maybe its slightly off-topic, but can anybody help with computing entropy on matrix of probabilities? Guess we have a matrix of probabilites, A, 2x2, something like this: z x 0 1 2 3 4 0 0.063 0.018 0.019 0.016 0.000 1 0.011 0.162 0.040 0.042 0.003 2 0.015 0.030 0.164 0.033 0.002 3 0.012 0.035 0.036 0.159 0.002 4 0.004 0.021 0.018 0.013 0.082 sum(A)=1 Can i

Hi, I would like to convert a decimal into a binary number, for instance : 2->(1,0) Any one knows how to do that ? Thanks a lot paul --- [[alternative HTML version deleted]]

This is very minor, but shouldn't log2(quote(1:10)) throw an error,the same as log() and other math functions do? It looks like log2 and log10 evaluate a call object instead of throwing a non-numeric-argument error. They do object to non-call language objects, like expressions. > log2(quote(1:10)) [1] 0.000000 1.000000 1.584963 2.000000 2.321928 2.584963 [7] 2.807355 3.000000

Hi all, Here is my problem: I performed bioassays using a unique insecticide on 9 different genotypes and got their mortality depending on the dose of insecticide used. Now, I want to see wether some genotypes are different or not in their responses to insecticide. My problem is that I have up to four replicates for some genotypes, but only one for other... Due to this unbalanced design, I

Dear R-users, I have a basic question about how to determine the antilog of a variable. Say I have some number, x, which is a factor of 2 such that x = 2^y. I want to figure out what y is, i.e. I am looking for the antilog base 2 of x. I have found log2 in the Reference Manual. But I am struggling how to get the antilog of that. Any help will be appreciated! > version platform