Bayesian Methods for Ecology

By A. Jansen. 2009

400 citations recorded by the source corpus.

Subfields: Environmental Engineering, Genetics, Water Science and Technology

View Paper: https://www.semanticscholar.org/paper/765fa9d405126d9b2f9e601c1f314f3c040c7ed1

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Citations in the corpus

Quantifying movement patterns for shark conservation at remote coral atolls in the Indian Ocean (2011, methodology): “Evidence ratios (ER = AICc weight of slope model 7 AICc weight of intercept-only model (see Burnham and Anderson 2002)) were used to compare models and are useful even for a comparison of a null model to a single alternative, in a concept akin to Bayesian odds ratios (McCarthy 2007).”
Repeatability for Gaussian and non‐Gaussian data: a practical guide for biologists (2010, background): “22) to provide a valid posterior distribution for repeatability itself, allowing direct calculation of credibility intervals, the Bayesian equivalent of confidence intervals (see Clark, 2005; Gill, 2007; McCarthy, 2007).”
Stable isotope‐based community metrics as a tool to identify patterns in food web structure in east African estuaries (2014, methodology): “We recommend reading McCarthy (2007) for an accessible introduction to Bayesian statistics.”
Final Collapse of the Neyman-Pearson Decision Theoretic Framework and Rise of the neoFisherian (2009, methodology): “…1997, Nix & Barnette 1998, Johnson 1999, Anderson et al. 2000, Nicholls 2001, Kline 2004, Fidler et al. 2006, Wagenmakers 2007, Lukacs et al. 2007, McCarthy 2007, Ziliak & McCloskey 2008, Cumming & Fidler 2009) have recommended doing away with significance testing and reporting of P values…”
A protocol for conducting and presenting results of regression‐type analyses (2016, background): “Recent years have seen a rise in applied statistics textbooks that use Bayesian analysis (McCarthy 2007; K ery 2010; Lunn et al. 2012; Zuur, Hilbe & Ieno 2013; Zuur, Saveliev & Ieno 2014; Korner-Nievergelt et al. 2015), and, while this technique will become widespread in future ecology studies, it m”
Eliciting Expert Knowledge in Conservation Science (2012, methodology): “Prior information from either empirical data or expert knowledge can be incorporated into Bayesian analyses by specifying appropriate prior probability distributions for parameters (McCarthy 2007).”
WinBUGS for population ecologists: bayesian modeling using markov chain Monte Carlo methods (2009, methodology): “…coupled with recent advances in computational power and the availability of flexible and reliable software have led to a great increase in the application of Bayesian methods within the last three decades, population ecology being no exception (Clark 2005; Ellison 2004; McCarthy 2007).”
Anthropogenic Noise as a Stressor in Animals: A Multidisciplinary Perspective (2007, background): “Expert opinion can (and should) be used in ecological studies, however it is very important that it is integrated in analyses appropriately (see Martin, Kuhnert, Mengersen, & Possingham, 2005 and McCarthy, 2007 on soliciting subjective priors for Bayesian estimates).”
Model selection and model averaging in behavioural ecology: the utility of the IT-AIC framework (2010, methodology): “We note that Bayesian approaches can also be used to compare models, conduct model averaging and infer biological mechanism (McCarthy 2007).”
Quantifying habitat use and preferences of pelagic seabirds using individual movement data: a review (2009, background): “More recent analyses have tended to evolve from these approaches rather than from a theoretical base, and the emphasis on hypothesis testing using conventional statistical techniques has various drawbacks (McCarthy 2007).”
Evaluating population viability and efficacy of conservation management using integrated population models (2018, methodology): “Bayesian population viability analysis (BPVA) has emerged as a powerful approach for overcoming limitations of classical PVA by allowing straightforward propagation of parameter uncertainty through the use of posterior probability distributions for parameters in population projections (Kéry & Schaub”
Mixed Effects Models and Extensions in Ecology with R (2009, methodology): “Our favourites are McCullagh and Nelder (1989), Agresti (2002), and Fitzmaurice et al.”
Information-theoretic approaches to statistical analysis in behavioural ecology: an introduction (2010, background): “…open up a new philosophical horizon in statistical modelling because they emphasise the importance of existing knowledge as a prior distribution, which is then updated in the light of new data to obtain the posterior probability distribution of a hypothesis (Gelman and Hill 2007; McCarthy 2007).”
Effect size, confidence interval and statistical significance: a practical guide for biologists (2007, methodology): “Grafen & Hails, 2002) makes sense even when trying to estimate one-off events for which a ‘true’ population value has no obvious meaning, such as the probability that a particular species becomes extinct within a given time frame (for Bayesian perspective of CIs or ‘credible’ intervals, see Clark & ”
Multimodel inference in ecology and evolution: challenges and solutions (2011, background): “…in this general area – amongst Frequentists, Information Theoreticians and Bayesians (e.g. Stephens et al., 2005, 2007; Lukacs et al., 2007; McCarthy, 2007) – ecologists and evolutionary biologists continue to derive interesting and important hypotheses, collect data to test their…”
Comparing isotopic niche widths among and within communities: SIBER - Stable Isotope Bayesian Ellipses in R. (2011, methodology): “In this case, vague normal priors are assigned to the means, and a vague Inverse-Wishart prior is used for R (this is a standard conjugate prior for covariance matrices, McCarthy 2007).”