@@ -34,7 +34,7 @@ The performance of Laplace approximations used by `spaMM` was assessed for spati
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@@ -34,7 +34,7 @@ The performance of Laplace approximations used by `spaMM` was assessed for spati
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.
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.
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)).
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)).
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 it retains from that work several distinctive features, such as methods to fit models with non-gaussian random effects, structured dispersion models, and implementation of several variants of Laplace and PQL approximations. However, later versions have increasingly relied on additional insights. In particular, the default likelihood approximation now goes beyond those discussed in these works.
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 it retains from that work several distinctive features, such as methods to fit models with non-gaussian random effects, structured dispersion models, and implementation of several variants of Laplace and PQL approximations. However, later versions have increasingly relied on additional insights. In particular, the default likelihood approximation now goes beyond those discussed in these works.
