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

[Heather H Kettrey]

Thanks to both of you! I will try this and if it does not work I will reach out to the multilevel help page that Marc suggested.


Heather Hensman Kettrey, PhD

Assistant Professor of Sociology

Clemson University

________________________________
From: Wolfgang Viechtbauer <wolfgang.viechtbauer using maastrichtuniversity.nl>
Sent: Wednesday, July 3, 2019 1:05:29 PM
To: Marc Schwartz; Heather H Kettrey
Cc: R-help
Subject: Re: [R] Conditional Logistic Regression with Multilevel Data [using clogistic() in Epi and lmer() in lme4???]

No need to install metafor for lme4.

Best,
Wolfgang



On July 3, 2019 5:19:13 PM GMT+02:00, Marc Schwartz <marc_schwartz using me.com> wrote:
>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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