| Literature DB >> 30730890 |
Abstract
Research in applied ecology provides scientific evidence to guide conservation policy and management. Applied ecology is becoming increasingly quantitative and model selection via information criteria has become a common statistical modeling approach. Unfortunately, parameters that contain little to no useful information are commonly presented and interpreted as important in applied ecology. I review the concept of an uninformative parameter in model selection using information criteria and perform a literature review to measure the prevalence of uninformative parameters in model selection studies applying Akaike's Information Criterion (AIC) in 2014 in four of the top journals in applied ecology (Biological Conservation, Conservation Biology, Ecological Applications, Journal of Applied Ecology). Twenty-one percent of studies I reviewed applied AIC metrics. Many (31.5%) of the studies applying AIC metrics in the four applied ecology journals I reviewed had or were very likely to have uninformative parameters in a model set. In addition, more than 40% of studies reviewed had insufficient information to assess the presence or absence of uninformative parameters in a model set. Given the prevalence of studies likely to have uninformative parameters or with insufficient information to assess parameter status (71.5%), I surmise that much of the policy recommendations based on applied ecology research may not be supported by the data analysis. I provide four warning signals and a decision tree to assist authors, reviewers, and editors to screen for uninformative parameters in studies applying model selection with information criteria. In the end, careful thinking at every step of the scientific process and greater reporting standards are required to detect uninformative parameters in studies adopting an information criteria approach.Entities:
Mesh:
Year: 2019 PMID: 30730890 PMCID: PMC6366740 DOI: 10.1371/journal.pone.0206711
Source DB: PubMed Journal: PLoS One ISSN: 1932-6203 Impact factor: 3.240
Empirical illustration of uninformative parameters.
Here, I illustrate uninformative parameters from a real example derived from analyses in Yalcin and Leroux [26]. The objective of this study was to assess the relative and combined effects of land-use change and climate change on the colonization and extinction of species. We used a case study in Ontario, Canada where birds were surveyed in standardized grids during two time periods (1981–1985 and 2001–2005). Below I provide results for a subset of the colonization models of one of the study species, black-throated blue warbler (Setophaga caerulescens). In the colonization model, the black-throated blue warbler is observed as absent in a grid in the first time period and the response is warbler absence (0) or presence (1) in the second time period. Yalcin and Leroux [26] selected covariates based on a priori hypotheses. These covariates measured changes in land-use (% change in land-cover in each grid (%LCC), % change in land-cover in 20km buffers surrounding each grid (%LCCb) and change in Net Primary Productivity (ΔNPP)) and climate (change in mean winter temperature (ΔMWT), change in mean summer temperature (ΔMST), and change in mean winter precipitation (ΔMWP)) during the time period between bird sampling. All models include sampling effort (SE) in order to control for variable sampling effort across grids and between time periods. Yalcin and Leroux [26] fit generalized linear models with a binomial error structure and a logit link for local colonization models for the black-throated blue warbler. See [26] for full details on data, methods, and hypotheses pertaining to each covariate used in these models. Table 1 provides a summary of AIC model selection results and parameter estimates (95% Confidence Interval) for a sub-set of the colonization models considered for this species. The first set of columns are the model covariates (abbreviations defined above) and the second set of columns are model selection information (K = number of estimated parameters, log L = model log-likelihood, ΔAICC = Difference in AICC between the top ranked model (i.e., model with lowest AICC) and current model, Pseudo R2 = McFadden’s pseudo R2). Each row is a different model and blank values for a covariate means that this particular model did not include this covariate. By following the decision tree in Fig 1, Yalcin and Leroux [26] identified the variable %LCCb is an uninformative parameter in models 2, 4, and 6 (bold).
| Model covariates | Model selection | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| Model | SE | ΔNPP | %LCC | %LCCb | ΔMST | ΔMWT | ΔMWP | K | log L | ΔAICC | Pseudo R2 |
| 1 | 0.30 | 0.06 | 0.04 | 0.25 | -2.54 | 6 | -276.14 | 0.00 | 0.28 | ||
| 2 | 0.30 | 0.06 | 0.04 | 0.25 | -2.54 | 7 | -276.14 | 2.00 | 0.28 | ||
| 3 | 0.30 | 0.05 | 0.25 | -2.06 | 0.07 | 6 | -278.18 | 4.07 | 0.27 | ||
| 4 | 0.30 | 0.05 | 0.29 | -2.04 | 0.07 | 7 | -277.63 | 4.97 | 0.27 | ||
| 5 | 0.30 | 0.06 | 0.32 | 0.08 | 5 | -279.95 | 5.61 | 0.26 | |||
| 6 | 0.30 | 0.06 | 0.35 | 0.08 | 6 | -279.34 | 6.39 | 0.26 | |||
| Intercept | 1 | -344.09 | 125.91 | 0.00 | |||||||
Fig 1Decision tree for identifying models with uninformative parameters in a model set based on warning signals (see main text).
This decision tree was used to assess the prevalence of uninformative parameters in top applied ecology journals (see Quantitative review). Note that the particular cut-off for the first step will vary based on the IC used (see main text).
Results of literature review.
Summary statistics (number and percentage of articles) of uninformative parameter assessment for four top journals in applied ecology. Articles were classified into four different categories for the prevalence of uninformative parameters in model sets–see main text for description of categories. The number of articles and percent of articles reported are compared to the subset of articles with AIC per journal, except in the final row which reports the totals across all journals. UP = uninformative parameter.
| Number of articles (%) with | |||||
|---|---|---|---|---|---|
| Journal (Total # in 2014) | Total # (%) with AIC | UP | very likely UP | no UP | insufficient information |
| Biological Conservation (329) | 87(26) | 7(8) | 20(23) | 25(29) | 35(40) |
| Conservation Biology (187) | 22(12) | 1(5) | 7(32) | 5(23) | 9(41) |
| Ecological Applications (163) | 33(20) | 0(0) | 8(24) | 8(24) | 17(51) |
| J. of Applied Ecology (182) | 39(21) | 3(8) | 11(28) | 12(31) | 13(33) |
| Total (861) | 181(21) | 11(6) | 46(25) | 50(28) | 74(41) |
Fig 2Results of literature review.
Summary of the use of IC and prevalence of uninformative parameters in articles reviewed from four top applied ecology journals (Biological Conservation, Conservation Biology, Ecological Applications, Journal of Applied Ecology). Articles were classified into four different categories for the prevalence of uninformative parameters in model sets–see main text for description of categories. Note that many papers in these journals do not use statistical analyses (e.g. essays). UP = uninformative parameter.