similar to: as.formula(string) and augPred in lme

Hello, Is there a way to get augPred to work with lme if a subset statement is used? For example, if I modify the example from ?augPred.lme to include a subset statement, I get the following error: fm1 <- lme(Orthodont, random = ~1, subset=distance>19) augPred(fm1, length.out = 2, level = c(0,1)) Error in tapply(object[[nm]], groups, FUN[["numeric"]], ...) : arguments

Hi, I'm new at this, I'm very confused, and I think I'm missing something important here. In our pet example we have this: > fm <- lme(Orthodont) > plot(Orthodont) > plot(augPred(fm, level = 0:1)) which gives us a trellis plot with the females above the males, starting with "F03", "F04", "F11", "F06", etc. I thought the point of

Hi using this code example: library(nlme) fm1 <- lme(Orthodont, random = ~1) plot(augPred(fm1)) is there any way to have the plots in each cell labelled and ordered according to Orthodont$Sex? I.e. in addition to the bar with the label for Orthodont$Subject there is another bar labelling the Sex of the subject? thanks a lot christoph --

Dear all as I did not get any response on my post about abline and plot(augPred)) I try again. I hope I do not break some posting guide rules. I would try to contact package maintainer directly but there is stated to be R-core people, so I feel R-help list shall be OK. I need to draw straight lines through augPred plotted panels (vertical or horizontal) at specified point. I know I shall

Dea-R community. I'd like to draw your attention to an issue I have recently encountered while doing my current data analysis. I've got an unexpected (to me) result from the command: > augPred(lmList(my.object)), 'my.object' being a grouped data frame of class: > class(my.object) [1] "nfnGroupedData" "nfGroupedData" "groupedData"

Dear friends. I tried the session below with 10 MB in both vsize and nsize but didn't get the example work. Is this a problem in LME or in me or both or somewhere else or undefined ? R : Copyright 1999, The R Development Core Team Version 0.64.0 Patched (May 3, 1999) R is free software and comes with ABSOLUTELY NO WARRANTY. You are welcome to redistribute it under certain conditions. Type

All, I'm trying to create an augPred plot in the nlme library, similar to the plot on p.43 of Pinheiro & Bates (Mixed Effects Models in S and S-Plus) for their Pixel data. My data structure is the same as the example but I still get the error msg below. > comp.adj.UKV <- groupedData(adj.UKV ~ Time | Patient_no/Lisinopril, data = comp.adj.UKV.frm, order.groups = F) >

Dear All, I've come across a problem in predict.lme. Assigning a model formula to a variable and then using this variable in lme (instead of typing the formula into the formula part of lme) works as expect. However, when performing a predict on the fitted model I gan an error messag - predict.lme (but not predictlm) seems to expect a 'properly' typed in formula and a cannot extract

Dear all I am trying nlme together with Pinheiro/Bates book. I constructed grouped data object with suitable plotting layout (according to some common factor, panels from bottom to top are in increasing order). When I do nlme(... some stuff...) I get fitted object which I can plot with plot(augPred(fit.nlme6, level=0:1)) but it results in completely different ordering. Is there any way

I am trying to estimate models with subsets using the NLME package. However, I am getting an error in the case below (among others): > subset <- c(rep(TRUE, 107), FALSE) > fm2 <- lme(distance ~ age + Sex, data = Orthodont, random = ~ 1, subset=subset) Error in xj[i] : invalid subscript type 'closure' > fm2 <- lme(distance ~ age + Sex, data = Orthodont, random = ~ 1,

Hi, I'm having some problems regarding the packages lme4 and nlme, more specifically in the denominator degrees of freedom. I used data Orthodont for the two packages. The commands used are below. require(nlme) data(Orthodont) fm1<-lme(distance~age+ Sex, data=Orthodont,random=~1|Subject, method="REML") anova(fm1) numDF DenDF F-value p-value (Intercept) 1

Dear all I try to refine my nlme models and with partial success. The model is refined and fitted (using Pinheiro/Bates book as a tutorial) but when I try to plot plot(augPred(fit4)) I obtain Error in predict.nlme(object, value[1:(nrow(value)/nL), , drop = FALSE], : Levels (0,3.5],(3.5,5],(5,7],(7,Inf] not allowed for vykon.fac > Is it due to the fact that I have unbalanced

Hello, I want to use lme to fit two (or more) models, and then compare the fits on each individual. I know how to write my own code to do this (for each individual, plot the raw data, followed by lines() to plot each fitted curve) but I would like to use plot(augPred(... as it produces a nice trellis plot. I thought I could do this with par(new=T) but it does not seem to work.

Hi everyone, I have a quick and probably easy question about lme for this list. Say, for instance you want to model growth in pituitary distance as a function of age in the Orthodont dataset. fm1 = lme(distance ~ I(age-8), random = ~ 1 + I(age-8) | Subject, data = Orthodont) You notice that there is substantial variability in the intercepts (initial distance) for people at 8 years, and that

Hi, I have a string that I want to use in a variable call. How can I remove the quotes and/or the string properties of the string to use it in a variable call? Here's an example: library(lme) fm2 <- lme(distance ~ age, data = Orthodont, random = ~ 1) summary(fm2) I want to update the above regression to include new predictors according to what is in a string: predictors <-

Full_Name: Per Broberg Version: 1.00 OS: Windows 98 Submission from: (NULL) (62.20.231.229) I tested my installation with the following: > library(lme) Loading required package: nls Error in dyn.load(x, as.logical(local), as.logical(now)) : unable to load shared library "C:\PROGRAM\R\RW1000/library/nls/libs/nls.dll": LoadLibrary failure > data(Orthodont) > fm1

Dear r-helpers, When I issue the commands plot(augPred(mcc.lme, primary = ~ mcc$age, length.out = 2, level = c (0, 1))) or plot(comparePred(mcc1.lis, mcc.lme, primary = ~ mcc$age, length.out = 2), layout = c(4, 3))) no lines are drawn. But fm1 <- lme(Orthodont) plot(augPred(fm1, level = 0:1, length.out = 2)) does plot lines. augPred() and comparePredict() seem to be working correctly, as

lme() and gls() models from the nlme package are all crashing with R.3.4.0. Identical code ran correctly, without error in R 3.3.3 and earlier versions. The behavior is easily demonstrated using one of the examples form the lme() help file, along with two simple variants. I have commented the errors generated by these calls, as well as the lines of code generating them, in the code example below.

Dear Douglas Bates. I just downloaded the compiled version (I'm a poor Windows devil, not yet having found the time to move to a more advanced platform...) from NT- the files are dated 30.5-1999 so they are not old - and the problem persisted....wonder what I did wrong ? R : Copyright 1999, The R Development Core Team Version 0.64.0 Patched (May 3, 1999) R is free software and comes with

Using ranef() (package nlme, version 3.1-75) with an 'lme' object I can obtain random effects for intercept and slope of a certain level (say: 1) - this corresponds to (say level 1) "residuals" in MLWin. Maybe I'm mistaken here, but the results are identical. However, if I try to get the standardized random effects adding the paramter "standard=T" to the