From e0aa5cb24011d8128a3d3f60bdb6283c2c215f3e Mon Sep 17 00:00:00 2001 From: francois <francois.rousset@umontpellier.fr> Date: Sun, 5 Mar 2023 21:08:47 +0000 Subject: [PATCH] Update README.md --- README.md | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/README.md b/README.md index 3d0a5eb..d5d2d19 100644 --- a/README.md +++ b/README.md @@ -37,7 +37,7 @@ Also available here is the [Supplementary Appendix G](http://kimura.univ-montp2. 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 it retains from that work several distinctive features, such as specific 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. Notably, the default likelihood approximation now goes beyond those discussed in these works, and is the same Laplace approximation ([Skaug & Fournier, 2006](https://doi.org/10.1016/j.csda.2006.03.005)) as in [TMB](https://cran.r-project.org/web/packages/TMB) 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). +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 ([Skaug & Fournier, 2006](https://doi.org/10.1016/j.csda.2006.03.005)) as in [TMB](https://cran.r-project.org/web/packages/TMB) 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). ## Credits Initial development was supported by a PEPS grant from the CNRS and University of Montpellier. -- GitLab