An embedded and charset-unspecified text was scrubbed... Name: not available Url: https://stat.ethz.ch/pipermail/r-help/attachments/20061211/0f94f4b6/attachment-0005.pl
How to write a two-way interaction as a random effect in a lmer model?
2 messages · Fucikova, Eva, Martin Henry H. Stevens
8 days later
Hi Eva, A couple questions: Are repeated measurements taken on rnr? Is rnr "subject"? Is stress a continuous variable? See below.
On Dec 11, 2006, at 11:04 AM, Fucikova, Eva wrote:
Dear All, I am working with linear mixed-effects models using the lme4 package in R. I created a model with the lmer function including some main effects, a two-way interaction and a random effect. Now I am searching how I could incorporate an interaction between the random effect and one of the fixed effects. I tried to express the interaction in: recap_random3<-lmer(breath~handling+stress+stress:handling+(1|rnr) +(0|rn r:stress))
lmer will want rnr:stress to be a factor, but (0|factor) doesn't make sense. To test for random variation in slopes, you want (stress | rnr), (or (1|rnr) + (0+stress | rnr) for uncorrelated slopes).
however R gives me the following error message : Error in eval(expr, envir, enclos) : fl[[2]] must be a factor of length 1744 In addition: Warning messages: 1: numerical expression has 1744 elements: only the first used in: rnr:stress 2: numerical expression has 1744 elements: only the first used in: rnr:stress If I fit this model in SPSS, this gives me output, but I don't know whether I can trust that. Therefore I went to look for an alternative: After looking at the help function in R for lmer I deduced these models. Examples from R (fm1 <- lmer(Reaction ~ Days + (Days|Subject), sleepstudy)) (fm2 <- lmer(Reaction ~ Days + (1|Subject) + (0+Days|Subject), sleepstudy)) anova(fm1, fm2) My models would then look like this: recap_random0<-lmer(breath~handling+stress (1|rnr)) recap_random1<-lmer(breath~handling+stress (1|rnr)+(0+stress|rnr))
Or rather with a plus sign
recap_random0<-lmer(breath~handling+stress + (1|rnr)) recap_random1<-lmer(breath~handling+stress + (1|rnr)+(0+stress|rnr))
or
recap_random0<-lmer(breath~handling+stress (stress | rnr))
However, I do not know how to interpret the results. Does the model see stress|rnr as an interaction between stress and rnr, or did it take stress nested in rnr.
summary(recap_random1)
Linear mixed-effects model fit by REML Formula: breath ~ handling + stress + stress:handling + (1 | rnr) + (0 + stress | rnr) AIC BIC logLik MLdeviance REMLdeviance 9748 9781 -4868 9719 9736 Random effects: Groups Name Variance Std.Dev. rnr (Intercept) 55.6711 7.4613 # BUT rnr stress 15.2805 3.9090 # Does this output line express the interaction???
If the model statement was correct, these would be variances associated with the intercepts and slopes of different levels of rnr. Thus, I would call that rnr by stress interaction. Cheers, Hank
Residual 7.4567 2.7307 # If not, how
should the interaction output look like?
number of obs: 1744, groups: rnr, 217; rnr, 217
Fixed effects:
Estimate Std. Error t value
(Intercept) 28.164471 0.716359 39.32
handling 0.012477 0.012330 1.01
stress 0.636979 0.416011 1.53
Correlation of Fixed Effects:
(Intr) hndlng stress
handling -0.645
stress -0.517 0.667
Could anybody please give me an advice how to solve this problem?
Which
way is correct to express interaction in the random factors? How
should
the output look like?
Thank you in advance,
Eva Fucikova
********************************************
Msc. Eva Fucikova
Netherlands Institute of Ecology (NIOO-KNAW)
PO Box 40
6666 ZG Heteren
The Netherlands
tel.: +31 (0)26 4791248
Email:E.Fucikova at nioo.knaw.nl
*******************************************
[[alternative HTML version deleted]]
______________________________________________ R-help at stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting- guide.html and provide commented, minimal, self-contained, reproducible code.
Hank Stevens, Assistant Professor 338 Pearson Hall Botany Department Miami University Oxford, OH 45056 Office: (513) 529-4206 Lab: (513) 529-4262 FAX: (513) 529-4243 http://www.cas.muohio.edu/~stevenmh/ http://www.muohio.edu/ecology/ http://www.muohio.edu/botany/ "E Pluribus Unum" If you send an attachment, please try to send it in a format anyone can read, such as PDF, text, Open Document Format, HTML, or RTF. Please try not to send me MS Word or PowerPoint attachments- Why? See: http://www.gnu.org/philosophy/no-word-attachments.html