[R] Conditional Logistic Regression with Multilevel Data [using clogistic() in Epi and lmer() in lme4???]

[Marc Schwartz]

Hi Heather,

I would defer to the mixed models experts, but I think that the basic approach using nested random effects seems to make sense.

I don’t know that there is a dependency of glmer()/lme4 on metafor for this specific use case, but would defer to Wolfgang on that point.

Regards,

Marc


> On Jul 3, 2019, at 10:40 AM, Heather H Kettrey <hkettre using clemson.edu> wrote:
> 
> Hi Marc and Wolfgang,
> 
> Thanks for your help. Is the following interpretation of your exchange correct?
> 
> I need to use the glmer() function in the lme4 package (first installing the devel version of metaphor). I can specify both site and matched pairing as random effects using (1 | site / id).
> 
> Is this understanding correct?
> 
> Thanks,
> 
> Heather 
> 
> Heather Hensman Kettrey, PhD
> Assistant Professor of Sociology
> Clemson University
> From: Wolfgang Viechtbauer <wolfgang.viechtbauer using maastrichtuniversity.nl>
> Sent: Wednesday, July 3, 2019 9:15:50 AM
> To: Marc Schwartz
> Cc: Heather H Kettrey; R-help
> Subject: Re: [R] Conditional Logistic Regression with Multilevel Data [using clogistic() in Epi and lmer() in lme4???]
>  
> Ouch, that was a brain fart on my part!
> 
> But indeed, since we can fit a 'single-site model' using glmer() (as shown), we should be able to just add 'site' as another random effect with (1 | site / id).
> 
> Best,
> Wolfgang
> 
> On July 3, 2019 1:26:54 PM GMT+02:00, Marc Schwartz <marc_schwartz using me.com> wrote:
> >Wolfgang,
> >
> >Perhaps I am missing something here, but with clogit(), or Heather's
> >initial attempt at using clogistic(), as both have 'strata' arguments,
> >wouldn't the 'strata' argument need to be able to accept a nested
> >structure, along the lines of strata(id / site)?
> >
> >On the page that you link to below, I don't see an example of that type
> >of nesting structure.
> >
> >The mixed effects models would generally support a nested random
> >effects specification, if that makes sense here.
> >
> >Regards,
> >
> >Marc Schwartz
> >
> >
> >> On Jul 3, 2019, at 4:41 AM, Viechtbauer, Wolfgang (SP)
> ><wolfgang.viechtbauer using maastrichtuniversity.nl> wrote:
> >> 
> >> Dear Heather,
> >> 
> >> You can do this with clogit() from the 'survival' package, using
> >strata(). See:
> >> 
> >>
> >https://urldefense.proofpoint.com/v2/url?u=http-3A__www.metafor-2Dproject.org_doku.php_tips-3Aclogit-5Fpaired-5Fbinary-5Fdata&d=DwIFaQ&c=Ngd-ta5yRYsqeUsEDgxhcqsYYY1Xs5ogLxWPA_2Wlc4&r=BBiFu06xLWCETvNuhD6uw-_crP2zH6EmpC772CQach0&m=PP2LCJ_pE4EwJysp-nsvWt8oIJqJ0nhFvSMBuh7T-ww&s=dvbBssAbENU3KBtLTcWb64QHTComM-RmP8my38CxhW0&e= 
> >> 
> >> You can also use lme4::glmer(), glmmML::glmmML(), or
> >metafor::rma.glmm() for that. [1]
> >> 
> >> [1] Rerunning this example, I noticed a slight issue with the
> >structuring of the output from rma.glmm() -- if you want to run that
> >example, install the 'devel' version of metafor as described here:
> >> 
> >> https://urldefense.proofpoint.com/v2/url?u=https-3A__wviechtb.github.io_metafor_-23installation&d=DwIFaQ&c=Ngd-ta5yRYsqeUsEDgxhcqsYYY1Xs5ogLxWPA_2Wlc4&r=BBiFu06xLWCETvNuhD6uw-_crP2zH6EmpC772CQach0&m=PP2LCJ_pE4EwJysp-nsvWt8oIJqJ0nhFvSMBuh7T-ww&s=POvfvp_zMlzeLnfGS2EavvZp1-P_0utedAIqz994QkI&e= 
> >> 
> >> Best,
> >> Wolfgang

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