[R-sig-ME] glmmTMB deviance enquiry

[Rion Lerm]

Thank you @bbolker using gmail.com <bbolker using gmail.com> for your elaborate
response.

I am using the Deviance values in this manner to compare model fit. Here, I
selected for the model with second to smallest Deviance values. May it be
presented like this as I feel it is important to display how a model was
selected from various models (the reason for selecting the second to
smallest values aren't explained here as is the details of this work):

*Model predictor fixed effects*

*SR.asymp*

*SES.FRic*

*SES.PD*



Deviance



Tree + Shrub + Grass + Bare ground + Infrastructure + Seasonal water +
Permanent water

760.4 | 1,463.6

172.1 | 319.6

206.7 | 420.7

Tree + Shrub + Bare ground + Infrastructure + Seasonal water + Permanent
water

*766.3 | 1467.7*

*179.0 | 325.2*

*207.3 | 421.3*

Tree + Shrub + Grass + Bare ground

777.1 | 1,520.3

179.4 | 368.7

229.3 | 441.5

Tree + Shrub + Grass + Bare ground + Infrastructure

776.8 | 1,484.3

179.0 | 323.0

217.2 | 424.2

Tree + Shrub + Grass + Bare ground + Seasonal water + Permanent water

760.5 | 1,498.4

172.3 | 363.2

216.8 | 439.9









Importantly, is there any literature I can cite on Deviance and its use? If
so, please supply a DOI.

Regards/Groete,

*Rion Lerm*

SAEON Ndlovu

C: 076 913 8381

W: 013 735 3536

SAEON / Scientific Services, Kruger National Park Gate, Phalaborwa, South
Africa

South African Environmental Observation Network

Website <https://ndlovu.saeon.ac.za/> & Location of our offices
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My research profiles:
*ResearchGate* <https://www.researchgate.net/profile/Rion-Lerm>

*ORCID <https://orcid.org/0000-0002-9992-2093>*
*Google Scholar
<https://scholar.google.com/citations?user=JV5d7E4AAAAJ&hl=en>*


On Tue, 7 Mar 2023 at 16:32, Ben Bolker <bbolker using gmail.com> wrote:

>     The deviance is twice the negative log-likelihood; if the deviance
> is D for a model with p parameters, then AIC = D + 2*p.  The deviance is
> an *unpenalized* measure of goodness of fit (badness of fit actually -
> lower deviance means better fit).
>
>     There's no need to report deviance in a paper if it's not useful to
> you or your readers. The deviance for a model alone is not particularly
> useful; you can use the deviances for several nested models to compute
> likelihood ratio rests (via anova()), or you can use deviance as the
> basis for computing AIC or BIC.
>
>    Hope that helps.
>
>    Ben Bolker
>
> On 2023-03-07 9:08 a.m., Rion Lerm via R-sig-mixed-models wrote:
> > I reported, in a paper, on the *Deviance* value for model fit as produced
> > by the *glmmTMB* function.
> >
> > Please explain how this value is computed, and what are the pros/cons of
> > this compared to e.g., AIC. I need to comprehend its use and explain the
> > how and why? to a reviewer and possibly the paper's readers.
> >
> > Regards and thanks in advance,
> >
> > *Rion Lerm*
> >
> > SAEON Ndlovu
> >
> > C: 076 913 8381
> >
> > W: 013 735 3536
> >
> > SAEON / Scientific Services, Kruger National Park Gate, Phalaborwa, South
> > Africa
> >
> > South African Environmental Observation Network
> >
> > Website <https://ndlovu.saeon.ac.za/> & Location of our offices
> > <
> https://www.google.co.za/maps/place/SAEON+Ndlovu+Node/@-23.9447244,31.164957,18z/data=!4m5!3m4!1s0x1ec36ec96261cfb7:0xb89a27144ba0ca2a!8m2!3d-23.9450103!4d31.1652626
> >
> >
> >
> >
> > My research profiles:
> > *ResearchGate* <https://www.researchgate.net/profile/Rion-Lerm>
> >
> > *ORCID <https://orcid.org/0000-0002-9992-2093>*
> > *Google Scholar
> > <https://scholar.google.com/citations?user=JV5d7E4AAAAJ&hl=en>*
> >
>
> --
> Dr. Benjamin Bolker
> Professor, Mathematics & Statistics and Biology, McMaster University
> Director, School of Computational Science and Engineering
> (Acting) Graduate chair, Mathematics & Statistics
>  > E-mail is sent at my convenience; I don't expect replies outside of
> working hours.
>
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