[R-sig-ME] Fixing variance components in glmmTMB

[Ben Bolker]

   OK.

   As you point out, both of these are in the NEWS: the change in 
variance scale is admittedly something you just have to know/read about. 
The change from 'betad' to 'betadisp' is something that it might be 
possible to flag with an informative error message ...

On 2025-01-22 10:14 a.m., Tempelman, Robert wrote:
> Got it working now...somebody passed onto me this nugget last night:
> 
> As of version 1.1.9 <https://urldefense.com/v3/__https://cloud.r- 
> project.org/web/packages/glmmTMB/news.html__;!!HXCxUKc! 
> 3__nPeuzixezIKH5upUs1PNx5jNLFsdcOqcwQWHN51gD4oFrwbgDeYztNRxll4gyEb7taAg9_BAvDR22KK2sHOPh$>, the argument corresponding to the residual variance (“betad”) is parameterized on the log-SD scale instead of the log-variance scale.   In version 1.1.10, this argument changed from “betad” to “betadisp”.
> 
> I had "betad" in all of my older code.
> 
> ------------------------------------------------------------------------
> *From:* R-sig-mixed-models <r-sig-mixed-models-bounces using r-project.org> on 
> behalf of Ben Bolker <bbolker using gmail.com>
> *Sent:* Wednesday, January 22, 2025 10:09 AM
> *To:* r-sig-mixed-models using r-project.org <r-sig-mixed-models using r-project.org>
> *Subject:* Re: [R-sig-ME] Fixing variance components in glmmTMB
>     Not intentionally/not that I know of.  Is this approach not working
> for you?  Can you provide a reproducible example of what you want to do
> and why it's not working, either here or on Stack Overflow or in the
> glmmTMB issues list?
> 
>     cheers
>      Ben Bolker
> 
> On 2025-01-21 2:33 p.m., Tempelman, Robert wrote:
>> Has the latest version of glmmTMB remove the ability to fix variance components in a mixed model?  i.e. https://urldefense.com/v3/__https://stackoverflow.com/ 
> questions/77585084/fix-variance-components-in-a-mixed-model-in-r- 
> glmmtmb-or-sommer__;!!HXCxUKc! 
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> UAvt5UX4EQ3yV-1PGenM$ <https://urldefense.com/v3/__https:// 
> stackoverflow.com/questions/77585084/fix-variance-components-in-a-mixed- 
> model-in-r-glmmtmb-or-sommer__;!!HXCxUKc! 
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>> 
>> 
>>        [[alternative HTML version deleted]]
>> 
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-- 
Dr. Benjamin Bolker
Professor, Mathematics & Statistics and Biology, McMaster University
Director, School of Computational Science and Engineering
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