[R-sig-ME] Main effects for zero inflation poisson regression

Ben Bolker bbolker at gmail.com
Mon Sep 25 01:28:19 CEST 2017

I think it would be worth posting this as an issue on the glmmTMB
issues list here: https://github.com/glmmtmb/glmmTMB/issues .  (You
might be able to attach a CSV file there: you can't send CSV
attachments to this mailing list.)

I'm not surprised that car::Anova doesn't work (I've still been
working on that one: see
). On the other hand, I am surprised that the standard two-model
anova() method doesn't work for you, e.g.

 g1 <- glmmTMB(Reaction~Days+(Days|Subject),lme4::sleepstudy)
 g0 <- update(g1,.~.-Days)

On Sat, Sep 23, 2017 at 12:48 PM, Francesco Romano
<francescobryanromano at gmail.com> wrote:
> Hello All,
> I am trying to run a type III Anova test on a zero-inflation poisson model
> with count data to obtain stats for main effects. In other words, I would
> like the output to include the df, Chisq, and p value for the main effect
> of my fixed effects. In the past, I have done this using the 'mixed'
> function or 'car::Anova' functions from the car package, or in the more
> traditional (and tedious) way by model comparison via anova(model1, model2,
> etc...).
> Unfortunately, none of these methods work as R returns an error message:
> #
>> anova(p.tmb5, p.tmb5a)
> Error in anova.glmmTMB(p.tmb5, p.tmb5a) :
>   no single-model anova() method for glmmTMB
>> car::Anova(p.tmb5, type = "III")
> Error in I.p[subs, , drop = FALSE] : subscript out of bounds
> In addition: Warning message:
> In is.na(coef(mod)) :
>   is.na() applied to non-(list or vector) of type 'NULL'
> The mixed function also can't be used because it will not work with glmmTMB
> which includes two formulas, one for the poisson regression, the other for
> the zero-inflation (see below).
>  My final model has two fixed effects, Verb.form and Response.type, with
> three levels each, and a random effect for participants.
>> p.tmb5<-glmmTMB(Count~Response.type*Verb.form+(1|Partname), data = p, zi
> = ~Response.type)
> Any suggestions are greatly appreciated. I attach my data in csv format.
> PS: Partnames and classes are fictitious.
> --
> Frank Romano Ph.D.
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