[R] Plotting log transformed predicted values from lme

[Paul Johnson]

In the rockchalk package, I have a function called newdata that will help
with this. Plenty of examples. Probably my predictOmatic function will just
work. Motivation is in the vignette.

Paul Johnson
University of Kansas

On Aug 9, 2017 11:23 AM, "Alina Vodonos Zilberg" <alina.vodonos at gmail.com>
wrote:

> Hi,
>
> I am performing meta-regression using linear mixed-effect model with the
> lme() function  that has two fixed effect variables;one as a log
> transformed variable (x)  and one as factor (y) variable, and two nested
> random intercept terms.
>
> I want to save the predicted values from that model and show the log curve
> in a plot ; predicted~log(x)
>
> mod<-lme(B~log(x)+as.factor(y), random=~1|cohort/Study,
> weights=varFixed(~I(SE^2)), na.action=na.omit, data=subset(meta),
>           control = lmeControl(sigma = 1, apVar = FALSE))
> summary(mod)
>
> newdat <- data.frame(x=seq(min(meta$x), max(meta$x),,118))  # I have 118
> observations. #How do I add the factor variable to my newdat?
> newdat$pred <- predict(mod, newdat,level = 0,type="response")
>
> plot(B ~ x, data=meta)
> lines(B ~ x, data=newdat)
>
> Can you please assist me ?
>
> Thank you!
>
> Alina
>
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