Why do classic biostatistical studies, alleged to provide causal explanations of effects, often fail? This article argues that in statistics-relevant areas of biology—such as epidemiology, population biology, toxicology, and vector ecology—scientists often misunderstand epistemic constraints on use of the statistical-significance rule (SSR). As a result, biologists often make faulty causal inferences. The paper (1) provides several examples of faulty causal inferences that rely on tests of statistical significance; (2) uncovers the flawed theoretical assumptions, especially those related to randomization, that likely (...) contribute to flawed biostatistics; (3) re-assesses the three classic (SSR-warrant, avoiding-selection-bias, and avoiding-confounders) arguments for using SSR only with randomization; and (4) offers five new reasons for biologists to use SSR only with randomized experiments. (shrink)

The complexity and heterogeneity of causes influencing ecology’s domain challenge its capacity to generate a general theory without exceptions, raising the question of whether ecology is capable, even in principle, of achieving the sort of theoretical success enjoyed by physics. Weber has argued that competition theory built around the Competitive Exclusion Principle (especially Tilman’s resource-competition model) offers an example of ecology identifying a law-like causal regularity. However, I suggest that as Weber presents it, the CEP is not yet a causal (...) regularity. Instead, I argue that the scientific understanding in Tilman’s theory takes a different form. The theory explains through a structure I call “channeling explanation” which does not depend on deduction from general laws, but rather builds on constraints and trade-offs represented in state-space. Recognizing this structure supports the more general point that ecology and other so-called special sciences can reveal novel theoretical approaches to philosophy of science when approached with openness to their uniqueness. (shrink)

Three metascientific concepts that have been object of philosophical analysis are the concepts oflaw, model and theory. The aim ofthis article is to present the explication of these concepts, and of their relationships, made within the framework of Sneedean or Metatheoretical Structuralism (Balzer et al. 1987), and of their application to a case from the realm of biology: Population Dynamics. The analysis carried out will make it possible to support, contrary to what some philosophers of science in general and of (...) biology in particular hold, the following claims: a) there are "laws" in biological sciences, b) many of the heterogeneous and different "models" of biology can be accommodated under some "theory", and c) this is exactly what confers great unifying power to biological theories. (shrink)

The question of whether there are laws of nature in ecology has developed substantially in the last 20 years. Many have attempted to rehabilitate ecology’s lawlike status through establishing that ecology possesses laws that robustly appear across many different ecological systems. I argue that there is still something missing, which explains why so many have been skeptical of ecology’s lawlike status. Community ecology has struggled to establish what I call a General Unificatory Theory. The lack of a GUT causes problems (...) for explanation as there are no guidelines for how to integrate the lower-level mathematical and causal models into a larger theory of how ecological assemblages are formed. I turn to a promising modern attempt to provide a unified higher-level explanation in ecology, presented by ecologist Mark Vellend, and advocate for philosophical engagement with its prospects for aiding ecological explanation. (shrink)

In the theory and history of ecology, Frederic Clements’s theory of plant communities is usually presented as the historical prototype and a paradigmatic example of synecological organicism, characterised by the assumption that ecological communities are functionally integrated units of mutually dependent species. In this paper, I will object to this standard interpretation of Clements’s theory. Undoubtedly, Clements compares plant communities with organisms and calls them “complex organisms” and “superorganisms”. Further, he can indeed be regarded as a proponent of ecological organicism—provided (...) that one defines ecological organicism as the interpretation of synecological units according to the model of the individual organism. However, Clements’s theory does not include the assumption that mutual dependence is a principle of the organisation of plant communities. Rather, he interprets plant communities as top-down control-hierarchical entities, in which subordinate species depend on dominant species—but not the other way around. Therefore, his theory represents what may be called ‘control-hierarchical organicism’ as against ‘mutualistic organicism’. The erroneous attribution to Clements of ‘mutualistic organicism’ might be due to an unawareness of the existence of different concepts of the organism. This unawareness results in the projection on Clements’s theory of a seemingly self-evident mutualistic concept of organism that Clements himself did not use as a basis for his theory of plant communities. (shrink)

Invasion biology is a relatively young discipline which is important, interesting and currently in turmoil. Biological invaders can threaten native ecosystems and global biodiversity; they can incur massive economic costs and even introduce diseases. Invasion biologists generally agree that being able to predict when and where an invasion will occur is essential for progress in their field. However, successful predictions of this type remain elusive. This has caused a rift, as some researchers are pessimistic and believe that invasion biology has (...) no future, whereas others are more optimistic and believe that the key to successful prediction is the creation of a general, unified theoretical framework which encompasses all invasion events. Although I agree that there is a future for invasion biology, extensive synthesis is not the way to better predictions. I argue that the causes of invasion phenomena are exceedingly complex and heterogeneous, hence it is impossible to make generalizations over particular events without sacrificing causal detail. However, this causal detail is just what is needed for the specific predictions which the scientists wish to produce. Instead, I show that a limited type of synthesis is a more useful tool for generating successful predictions. An important implication of my view is that it points to a more pluralistic approach to invasion biology, where generalization and prediction are treated as important yet distinct research goals. (shrink)

Frigg and Reiss (2009) argue that philosophical problems in simulation bear enough resemblance to recognized issues in the philosophy of modeling that they only pose challenges analogous to those found in standard analytic models used to represent natural systems. They suggest that there are no new philosophical problems in computer simulation modeling beyond those found in traditional mathematical modeling. Winsberg (2009) has countered that there appear to be genuinely new epistemological problems in simulation modeling because the knowledge obtained from them (...) is ‘downward, motley, and autonomous.’ Here I draw out some specific ways that these epistemological problems are manifest in complex ecological simulation, especially in agent-based models. These models contain novel features that were impossible to anticipate prior to the computer revolution, and continue to present difficulties and challenges of both a practical and philosophical nature (Humphreys 2002). (shrink)