@@ -35,7 +35,7 @@ The performance of likelihood ratio tests based on `spaMM` fits, and the impact
Rousset F., Ferdy J.-B. (2014) [Testing environmental and genetic effects in the presence of spatial autocorrelation](http://onlinelibrary.wiley.com/doi/10.1111/ecog.00566/abstract). Ecography, 37: 781-790.
Also available here is the [Supplementary Appendix G](http://kimura.univ-montp2.fr/%7Erousset/spaMM/RoussetF14AppendixG.pdf) from that paper, including comparisons with a trick that has been uncritically used to constrain the functions `lmer` and `glmmPQL` to analyse spatial models.
For some substantial use of various features of `spaMM`, see e.g. the [IsoriX project](https://github.com/courtiol/IsoriX), or a story about [social dominance in hyaenas](https://doi.org/10.1038/s41559-018-0718-9), or [yet another depressing story about climate change](https://doi.org/10.1038/s41467-019-10924-4), or [the life-history of mothers of twins](https://doi.org/10.1038/s41467-022-30366-9), or a comparison of prediction by LMMs and by random-forest methods (in supplementary material of [a paper on protected area personnel](https://doi.org/10.1038/s41893-022-00970-0)) or [analyses of dyadic interactions in mandrills](https://doi.org/10.7554/eLife.79417).
For some substantial use of various features of `spaMM`, see e.g. the [IsoriX project](https://github.com/courtiol/IsoriX), or a story about [social dominance in hyaenas](https://doi.org/10.1038/s41559-018-0718-9), or [yet another depressing story about climate change](https://doi.org/10.1038/s41467-019-10924-4), or [the life-history of mothers of twins](https://doi.org/10.1038/s41467-022-30366-9), or a comparison of prediction by LMMs and by random-forest methods (in supplementary material of [a paper on protected area personnel](https://doi.org/10.1038/s41893-022-00970-0)), or [analyses of dyadic interactions in mandrills](https://doi.org/10.7554/eLife.79417).
Initial development drew inspiration from work by Lee and Nelder on _h_-likelihood (e.g. [Lee, Nelder & Pawitan](https://doi.org/10.1201/9781420011340), 2006; [Lee & Lee](http://dx.doi.org/10.1007/s11222-011-9265-9) 2012; see also [Molas and Lesaffre](http://dx.doi.org/10.1002/sim.3852), 2010), and `spaMM` retains from that work several distinctive features, such as specific methods to fit models with non-gaussian random effects, structured dispersion models with random effects, and implementation of several variants of Laplace and PQL approximations. However, later versions have increasingly relied on additional insights. Notably, the default likelihood approximation now goes beyond those discussed in these works, and is the same Laplace approximation as in `TMB` ([Kristensen et al., 2016](https://doi.org/10.18637/jss.v070.i05)) and packages based on `TMB`, in particular where this departs from what is discussed in the _h_-likelihood literature (i.e., for GLM families with non-canonical link, or response families not of the GLM class).
