This paper argues that a plant together with the symbiotic fungus attached to its roots, a mycorrhizal collective, is an evolutionary individual, and further, that mycorrhizal individuality has important implications for evolutionary theory. Theoretical individuation is defended and then employed to show that mycorrhizal collectives function as interactors according to David Hull’s replicator-interactor model of evolution by natural selection, and because they have the potential to engage in pseudo-vertical transmission, mycorrhizal collectives also function as Darwinian individuals, according to Peter Godfrey-Smith’s (...) Darwinian Populations model of evolution by natural selection. Mycorrhizae in nature usually connect the roots of multiple plants, so mycorrhizal individuality entails the existence of overlapping evolutionary individuals, and because the potential to engage in pseudo-vertical transmission comes in degrees, it follows that these overlapping evolutionary individuals also come in degrees. I suggest here that the degree of evolutionary individuality in a symbiotic collective corresponds to its probability of reproducing with vertical or pseudo-vertical transmission. This probability constitutes a fourth parameter of graded Darwinian individuality in collective reproducers and warrants an update to Godfrey-Smith’s 3D model. (shrink)

Philosophers are approaching a consensus that biological individuality, including evolutionary individuality, comes in degrees. Graded evolutionary individuality presents a puzzle when juxtaposed with another widely embraced view: that evolutionary individuality follows from being a selectable member of a Darwinian population. Population membership is, on the orthodox view, a bivalent condition, so how can members of Darwinian populations vary in their degree of individuality? This article offers a solution to the puzzle, by locating difference in degree of evolutionary individuality at the (...) level of population lineages, some of which are more Darwinian than others. In doing so, it sheds light on graded individuality in overlapping and nested population lineages, such as those that arise in multilevel selection and symbiotic collectives. (shrink)

Reference models of the earth’s interior play an important role in the acquisition of knowledge about the earth’s interior and the earth as a whole. Such models are used as a sort of standard reference against which data are compared. I argue that the use of reference models merits more attention than it has gotten so far in the literature on models, for it is an example of a method of doing science that has a long and significant history, and (...) a study of reference models could increase our understanding of this methodology. (shrink)

Philosophical accounts of emergence have been explicated in terms of logical relationships between statements (derivation) or static properties (function and realization). Jaegwon Kim is a modern proponent. A property is emergent if it is not explainable by (or reducible to) the properties of lower level components. This approach, I will argue, is unable to make sense of the kinds of emergence that are widespread in scientific explanations of complex systems. The standard philosophical notion of emergence posits the wrong dichotomies, confuses (...) compositional physicalism with explanatory physicalism, and is unable to represent the type of dynamic processes (self-organizing feedback) that both generate emergent properties and express downward causation. (shrink)

I analyze the epistemic strategies used by paleontologists (between 1830–1930) to reconstruct features of ancient organisms from fossilized bodies and footprints by presenting two heuristics: (1) a “claim of harmony” which posits the harmonious interaction of natural objects in order for complex systems to be simplified and (2) the “kintsugi heuristic” which is used inter-theoretically to explore new claims of harmony. I apply these to three successive historical cases: Georges Cuvier’s laws of correlation, the panpsychist paleontology of Edward Drinker Cope, (...) and the single-character approach of Henry Fairfield Osborn. (shrink)

Is there a field of social intelligence? Many various disciplines approach the subject and it may only seem natural to suppose that different fields of study aim at explaining different phenomena; in other words, there is no special field of study of social intelligence. In this paper, I argue for an opposite claim. Namely, there is a way to integrate research on social intelligence, as long as one accepts the mechanistic account to explanation. Mechanistic integration of different explanations, however, comes (...) at a cost: mechanism requires explanatory models to be fairly complete and realistic, and this does not seem to be the case for many models concerning social intelligence, especially models of economical behavior. Such models need either be made more realistic, or they would not count as contributing to the same field. I stress that the focus on integration does not lead to ruthless reductionism; on the contrary, mechanistic explanations are best understood as explanatorily pluralistic. (shrink)

Is there a field of social intelligence? Many various disciplines approach the subject and it may only seem natural to suppose that different fields of study aim at explaining different phenomena; in other words, there is no special field of study of social intelligence. In this paper, I argue for an opposite claim. Namely, there is a way to integrate research on social intelligence, as long as one accepts the mechanistic account to explanation. Mechanistic integration of different explanations, however, comes (...) at a cost: mechanism requires explanatory models to be fairly complete and realistic, and this does not seem to be the case for many models concerning social intelligence, especially models of economical behavior. Such models need either be made more realistic, or they would not count as contributing to the same field. I stress that the focus on integration does not lead to ruthless reductionism; on the contrary, mechanistic explanations are best understood as explanatorily pluralistic. (shrink)

The claim defended in the paper is that the mechanistic account of explanation can easily embrace idealization in big-scale brain simulations, and that only causally relevant detail should be present in explanatory models. The claim is illustrated with two methodologically different models: Blue Brain, used for particular simulations of the cortical column in hybrid models, and Eliasmith’s SPAUN model that is both biologically realistic and able to explain eight different tasks. By drawing on the mechanistic theory of computational explanation, I (...) argue that large-scale simulations require that the explanandum phenomenon is identified; otherwise, the explanatory value of such explanations is difficult to establish, and testing the model empirically by comparing its behavior with the explanandum remains practically impossible. The completeness of the explanation, and hence of the explanatory value of the explanatory model, is to be assessed vis-à-vis the explanandum phenomenon, which is not to be conflated with raw observational data and may be idealized. I argue that idealizations, which include building models of a single phenomenon displayed by multi-functional mechanisms, lumping together multiple factors in a single causal variable, simplifying the causal structure of the mechanisms, and multi-model integration, are indispensable for complex systems such as brains; otherwise, the model may be as complex as the explanandum phenomenon, which would make it prone to so-called Bonini paradox. I conclude by enumerating dimensions of empirical validation of explanatory models according to new mechanism, which are given in a form of a “checklist” for a modeler. (shrink)

One of the critical issues in the philosophy of science is to understand scientific knowledge. This paper proposes a novel approach to the study of reflection on science, called “cognitive metascience”. In particular, it offers a new understanding of scientific knowledge as constituted by various kinds of scientific representations, framed as cognitive artifacts. It introduces a novel functional taxonomy of cognitive artifacts prevalent in scientific practice, covering a huge diversity of their formats, vehicles, and functions. As a consequence, toolboxes, conceptual (...) frameworks, theories, models, and individual hypotheses can be understood as artifacts supporting our cognitive performance. It is also shown that by empirically studying how artifacts function, we may discover hitherto undiscussed virtues and vices of these scientific representations. This paper relies on the use of language technology to analyze scientific discourse empirically, which allows us to uncover the metascientific views of researchers. This, in turn, can become part of normative considerations concerning virtues and vices of cognitive artifacts. (shrink)

It is wholly uncontroversial that measurements-or, more properly, propositions that are measurement reports-are often paradigmatically good cases of propositions that serve the function of evidence. In normal cases it is also obvious that stating such a report is an utterly pedestrian case of successful assertion. So, for example, there is nothing controversial about the following claims: (1) that a proposition to the effect that a particular thermometer reads 104C when properly used to determine the temperature of a particular patient is (...) evidence that the patient in question has a fever and (2) that there is nothing wrong with asserting the proposition that a particular thermometer reads 104C for appropriate reasons of communication, etc. when the thermometer has been properly used to determine the temperature of a particular patient. Here it will be shown that Timothy Williamson’s commitments to a number of principles about knowledge and assertion imply that a whole class of utterly ordinary statements like these that are used as evidence are not really evidence because they are not knowledge and so are (perversely) unassertable according to his principled commitments. This paper deals primarily with the second of these two problems and an alternative account of the norms of assertion is introduced which allows for the assertability of such measurement reports. (shrink)

Unified, all-purpose, philosophical models of reduction in science lack resources for capturing varieties of cross-scientific relations that have proven critical to understanding some scientific achievements. Not only do those models obscure the distinction between successional and cross-scientific relations, their preoccupations with the structures of both theories and things provide no means for accommodating the contributions to various sciences of theories and research about long-term diachronic processes involving large-scale, distributed systems. Darwin's theory of evolution by natural selection is the parade case. (...) Explanatory pluralism accommodates a wider range of connections between theories and inquiries in science than all-purpose models of reduction do. Consequently, it provides analytical tools for understanding the roles of the theoretical proposals about the evolution of the human mind/brain that have proliferated over the last two decades. Those proposals have testable implications pertaining to both structure and processing in the modern human mind/brain. An example of such research illustrates how those proposals and investigative tools and experiments cut across both explanatory levels and modes of analysis within the cognitive sciences and how those studies can yield evidence that bears on the assessment of competing theories and models. (shrink)

Interactionism holds that explanatory and interpretive projects are mutually enriching. If so, then the evolutionary and cognitive science of religions’ explanatory theories should aid interpretive projects concerning religious meaning. Although interpretive accounts typically focus on the local and the particular, interpreters over the past century have construed Freud and Marx as offering general interpretive theories. So, precedent for general interpretive theorizing exists. 4E cognitive science, which champions how cognition is embedded in natural and cultural settings, extended into external structures, enacted (...) via motor routines, and embodied via representations rooted in human bodily form, has encouraged interpretive researchers. Theories of embodied cognition especially have embraced a sweeping view of meaning that attends to the emotions’ role and to their evolutionary origins. That inspires a 6E cognitive science that attends to the emotional and evolved dimensions of cognition too and opens up the possibility of general interpretive theories of broadly Darwinian character. Evolved cognitive systems qualify as maturationally natural cognition, which exhibits a distinctive constellation of features. The by-product theory holds that religious representations’ engagement of maturationally natural cognition fosters religions’ success. Representations with some minimal violation of intuitive expectations concerning some ontological category grab attention, stick in memory, and preserve the many automatic inferences accompanying the category. The empirical evidence for this and other elaborations of the by-product view suggests that it discloses dynamics of evolved cognition and associated emotions that tend to guide the pursuit of religious meanings systematically toward well-worn grooves in the semantic landscape. (shrink)

In recent years, quite a few evolutionary psychologists have come to embrace a heuristic interpretation of the discipline. They claim that, no matter how methodologically incomplete, adaptive thinking works fine as a good heuristic that effectively reduces the hypothesis space by generating novel and promising hypotheses that can eventually be empirically tested. The purpose of this article is to elucidate the use of heuristics in evolutionary psychology, thereby clarifying the role adaptive thinking has to play. To that end, two typical (...) heuristic interpretations—Machery’s "bootstrap strategy" and Goldfinch’s heuristically streamlined evolutionary psychology—are examined, focusing on the relationship between adaptive thinking and heuristics. The article draws two primary conclusions. The first is that the reliability of the heuristic hypothesis generation procedure should count no less than the conclusiveness of the final testing procedure in establishing scientific facts; nature does not always get the last word. Philosophy also counts. The second is that adaptive thinking constitutes a core heuristic in evolutionary psychology that provides the discipline with its raison d'être, but this is only possible when adaptive thinking is substantiated with sufficient historical underpinnings. (shrink)

In this article, we analyse how researchers use the categories of race and ethnicity with reference to genetics and genomics. We show that there is still considerable conceptual “messiness” (despite the wide-ranging and popular debate on the subject) when it comes to the use of ethnoracial categories in genetics and genomics that among other things makes it difficult to properly compare and interpret research using ethnoracial categories, as well as draw conclusions from them. Finally, we briefly reconstruct some of the (...) biases of reductionism to which geneticists (as well as other researchers referring to genetic methods and explanations) are particularly exposed to, and we analyse the problem in the context of the biologization of ethnoracial categories. Our work constitutes a novel, in-depth contribution to the debate about reporting race and ethnicity in biomedical and health research. First, we reconstruct the theoretical background assumptions about racial ontology which researchers implicitly presume in their studies with the aid of a sample of recent papers published in medical journals about COVID-19. Secondly, we use the typology of the biases of reductionism to the problem of biologization of ethnoracial categories with reference to genetics and genomics. (shrink)

Modelers are tackling ever more complex systems with the aid of computation. Model-based inferences can play a key role in their ability to handle complexity and produce reliable or informative models. We study here the role of model-based inference in the modern field of computational systems biology. We illustrate how these inferences operate and analyze the material and theoretical bases or conditions underlying their effectiveness. Our investigation reiterates the significance and centrality of model-based reasoning in day-to-day problem-solving practices, and the (...) role that debugging processes of partial or incomplete models can play in scientific inference and scientific discovery, particularly with respect to complex systems. We present several deeper implications such an analysis has for philosophy of science regarding the role of models in scientific practice. (shrink)

Modern integrative systems biology defines itself by the complexity of the problems it takes on through computational modeling and simulation. However in integrative systems biology computers do not solve problems alone. Problem solving depends as ever on human cognitive resources. Current philosophical accounts hint at their importance, but it remains to be understood what roles human cognition plays in computational modeling. In this paper we focus on practices through which modelers in systems biology use computational simulation and other tools to (...) handle the cognitive complexity of their modeling problems so as to be able to make significant contributions to understanding, intervening in, and controlling complex biological systems. We thus show how cognition, especially processes of simulative mental modeling, is implicated centrally in processes of model-building. At the same time we suggest how the representational choices of what to model in systems biology are limited or constrained as a result. Such constraints help us both understand and rationalize the restricted form that problem solving takes in the field and why its results do not always measure up to expectations. (shrink)

Many philosophers of science think scientific practice can benefit from philosophical concepts, and as such philosophy of science should play a direct role in science and engineering education. In this paper we consider a highly integrative course design strategy for integrating philosophy of science in specific disciplinary educational programmes through adaptation, operationalization and embedding of philosophy of science material to fit both the scientific and educational structure of a programme. The goal of the strategy is to help encourage students to (...) recognize the value of philosophical concepts to scientific decision making and to apply them in their own scientific practice. We use the example of a 7.5 ECTS civil engineering course which implements this design at a European technical university, to elaborate these concepts, and present some evidence on how students receive the course. We discuss some of challenges and limitations of implementing this kind of strategy for teaching philosophy of science. (shrink)

Prediction and control sufficient for reliable medical and other interventions are prominent aims of modeling in systems biology. The short-term attainment of these goals has played a strong role in projecting the importance and value of the field. In this paper I identify the standard models must meet to achieve these objectives as predictive robustness—predictive reliability over large domains. Drawing on the results of an ethnographic investigation and various studies in the systems biology literature, I explore four current obstacles to (...) achieving predictive robustness; data constraints, parameter uncertainty, collaborative constraints and system-scale requirements. I use a case study and the commentary of systems biologists themselves to show that current practices in the field, rather than pursuing these goals, frequently use models heuristically to investigate and build understanding of biological systems that do not meet standards of predictive robustness but are nonetheless effective uses of computation. A more heuristic conception of modeling allows us to interpret current practices as ways that manage these obstacles more effectively, particularly collaborative constraints, such that modelers can in the long-run at least work towards prediction and control. (shrink)

In this paper, I present a new framework supporting the claim that some elements in science play a constitutive function, with the aim of overcoming some limitations of Friedman's (2001) account. More precisely, I focus on what I consider to be the gradualism implicit in Friedman's interpretation of the constitutive a priori, that is, the fact that it seems to allow for degrees of 'constitutivity'. I tease out such gradualism by showing that the constitutive character Friedman aims to track can (...) be captured by three features - namely, quasi-axiomaticity (QA), generative potential (GP), and empirical shielding (ES) - which are exhibited to a maximal degree by the examples Friedman deploys, particularly in his analysis of Newtonian mechanics. I argue that not all varieties of 'constitutivity' can be captured by the kind of gradualism implicit in Friedman's view, although developing the gradualism itself might provide useful insights. To show this, I analyse the function of the Hardy-Weinberg principle (HWP) in population genetics in terms of its QA, GP, and ES. Whereas the HWP does not count as constitutive in classical philosophical interpretations (Sober 1984), nor does it within Friedman's framework, it does nonetheless perform a minimally constitutive function. By means of historical details and considerations on the prospects of replacing the HWP, I show that the HWP is minimally constitutive by being a counterfactual instantiation of a paradigmatically constitutive stability principle, where the latter might itself be regarded as an enabling condition for a variety of modelling practices across the sciences. (shrink)

Evolutionary developmental biology (Evo-devo) is a vibrant area of contemporary life science that should be (and is) increasingly incorporated into teaching curricula. Although the inclusion of this content is important for biological pedagogy at multiple levels of instruction, there are also philosophical lessons that can be drawn from the scientific practices found in Evo-devo. One feature of particular significance is the interdisciplinary nature of Evo-devo investigations and their resulting explanations. Instead of a single disciplinary approach being the most explanatory or (...) fundamental, different methodologies from biological disciplines must be synthesized to generate empirically adequate explanations. Thus, Evo-devo points toward a non-reductionist epistemology in biology. I review three areas where these synthetic efforts become manifest as a result of Evo-devo’s practices (form versus function reasoning styles; problem-structured investigations; idealizations related to studying model organisms), and then sketch some possible applications to teaching biology. These philosophical considerations provide resources for life science educators to address (and challenge) key aspects of the National Science Education Standards and Benchmarks for Scientific Literacy. (shrink)

According to Joshua Alexander, philosophers use intuitions routinely as a form of evidence to test philosophical theories but experimental philosophy demonstrates that these intuitions are unreliable and unrepresentative.1 According to Herman Cappelen, philosophers never use intuitions as evidence (despite the vacuous sentential leader ‘intuitively’) and experimental philosophy lacks a rationale for its much-touted existence.2 That two books are diametrically opposed on methodology in philosophy is not noteworthy. But eyebrows might be raised at such contradictory accounts of the phenomenology of philosophical (...) inquiry. What is it that (analytic) philosophers do? Why is it so difficult to achieve consensus on the professional activities in which we engage? (shrink)

Using the context of controversies surrounding evolutionary developmental biology (EvoDevo) and the possibility of an Extended Evolutionary Synthesis, I provide an account of theory structure as idealized theory presentations that are always incomplete (partial) and shaped by their conceptual content (material rather than formal organization). These two characteristics are salient because the goals that organize and regulate scientific practice, including the activity of using a theory, are heterogeneous. This means that the same theory can be structured differently, in part because (...) theory presentations (as idealizations) intentionally depart from different features known to be present in a theory. Since there are diverse and potentially incompatible theory structures derived from heterogeneous goals found in scientific practices, a question arises about the absence of a unifying theory structure in the background. The notion of a “theory façade” offers a fruitful perspective on this potentially unsettling result. (shrink)

Günter Wagner’s Homology, Genes, and Evolutionary Innovation collects and synthesizes a vast array of empirical data, theoretical models, and conceptual analysis to set out a progressive research program with a central theoretical commitment: the genetic theory of homology. This research program diverges from standard approaches in evolutionary biology, provides sharpened contours to explanations of the origin of novelty, and expands the conceptual repertoire of evolutionary developmental biology. I concentrate on four aspects of the book in this essay review: the genetic (...) theory of homology and character identity networks; the implications for how we explain evolutionary novelties; the expanded set of concepts surrounding homology, and the epistemological conflicts between Wagner’s viewpoint and functionally-oriented evolutionary biology, as well as differences with other Evo–devo researchers. Together these have ramifications for how we interpret different explanatory approaches to evolutionary phenomena and understand relationships between the usefulness of concepts and the reality they represent. (shrink)

The many-faced relationship between chemistry and physics is one of the most discussed topics in the philosophy of chemistry. In his recent book Reducing Chemistry to Physics. Limits, Models, Consequences, Hinne Hettema conceives this relationship as a reduction link, and devotes his work to defend this position on the basis of a “naturalized” concept of reduction. In the present paper I critically review three kinds of issues stemming from Hettema’s argumentation: philosophical, scientific and methodological.

I propose a distinct type of robustness, which I suggest can support a confirmatory role in scientific reasoning, contrary to the usual philosophical claims. In model robustness, repeated production of the empirically successful model prediction or retrodiction against a background of independentlysupported and varying model constructions, within a group of models containing a shared causal factor, may suggest how confident we can be in the causal factor and predictions/retrodictions, especially once supported by a variety of evidence framework. I present climate (...) models of greenhouse gas global warming of the 20th Century as an example, and emphasize climate scientists’ discussions of robust models and causal aspects. The account is intended as applicable to a broad array of sciences that use complex modeling techniques. (shrink)

Many cognitive and evolutionary theories of religion argue that supernatural explanations are byproducts of our cognitive adaptations. An influential argument states that our supernatural explanations result from a tendency to generate anthropomorphic explanations, and that this tendency is a byproduct of an error management strategy because agents tend to be associated with especially high fitness costs. We propose instead that anthropomorphic and other supernatural explanations result as features of a broader toolkit of well-designed cognitive adaptations, which are designed for explaining (...) the abstract and causal structure of complex, unobservable, and uncertain phenomena that have substantial impacts on fitness. Specifically, we argue that (1) mental representations about the abstract vs. the supernatural are largely overlapping, if not identical, and (2) when the data-generating processes for scarce and ambiguous observations are complex and opaque, a naive observer can improve a bias-variance trade-off by starting with a simple, underspecified explanation that Western observers readily interpret as “supernatural.” We then argue that (3) in many cases, knowledge specialists across cultures offer pragmatic services that involve apparently supernatural explanations, and their clients are frequently willing to pay them in a market for useful and effective services. We propose that at least some ethnographic descriptions of religion might actually reflect ordinary and adaptive responses to novel problems such as illnesses and natural disasters, where knowledge specialists possess and apply the best available explanations about phenomena that would otherwise be completely mysterious and unpredictable. (shrink)

I propose a framework that explicates and distinguishes the epistemic roles of data and models within empirical inquiry through consideration of their use in scientific practice. After arguing that Suppes’ characterization of data models falls short in this respect, I discuss a case of data processing within exploratory research in plant phenotyping and use it to highlight the difference between practices aimed to make data usable as evidence and practices aimed to use data to represent a specific phenomenon. I then (...) argue that whether a set of objects functions as data or models does not depend on intrinsic differences in their physical properties, level of abstraction or the degree of human intervention involved in generating them, but rather on their distinctive roles towards identifying and characterizing the targets of investigation. The paper thus proposes a characterization of data models that builds on Suppes’ attention to data practices, without however needing to posit a fixed hierarchy of data and models or a highly exclusionary definition of data models as statistical constructs. (shrink)

I propose a framework that explicates and distinguishes the epistemic roles of data and models within empirical inquiry through consideration of their use in scientific practice. After arguing that Suppes’ characterization of data models falls short in this respect, I discuss a case of data processing within exploratory research in plant phenotyping and use it to highlight the difference between practices aimed to make data usable as evidence and practices aimed to use data to represent a specific phenomenon. I then (...) argue that whether a set of objects functions as data or models does not depend on intrinsic differences in their physical properties, level of abstraction or the degree of human intervention involved in generating them, but rather on their distinctive roles towards identifying and characterizing the targets of investigation. The paper thus proposes a characterization of data models that builds on Suppes’ attention to data practices, without however needing to posit a fixed hierarchy of data and models or a highly exclusionary definition of data models as statistical constructs. (shrink)

Because biologization of psychiatric constructs does not involve derivation of laws, or reduce the number of entities involved, the traditional term of ‘reduction’ should be replaced. This paper describes biologization in terms of redefinition, which involves changing the definition of terms sharing the same extension. Redefinition obtains through triangulation and calibration, that is, respectively, detection of an object from two different spots, and tweaking parameters of detection in order to optimize the picture. The unity of the different views of the (...) same object does not occur through derivation from one of them, as reduction suggests, nor does it obtain through mechanistic unity or the goal of explaining one mechanism, as the phrase ‘mosaic unity’ suggests. Instead, it depends on finding a specific angle of observation, from which linguistic consistency matches sound localization in the brain, so that all observations make sense together, just as an anamorphic picture makes clear sense only when observed from the right spot. (shrink)

Empirical philosophers of science aim to base their philosophical theories on observations of scientific practice. But since there is far too much science to observe it all, how can we form and test hypotheses about science that are sufficiently rigorous and broad in scope, while avoiding the pitfalls of bias and subjectivity in our methods? Part of the answer, we claim, lies in the computational tools of the digital humanities, which allow us to analyze large volumes of scientific literature. Here (...) we advocate for the use of these methods by addressing a number of large-scale, justificatory concerns—specifically, about the epistemic value of journal articles as evidence for what happens elsewhere in science, and about the ability of DH tools to extract this evidence. Far from ignoring the gap between scientific literature and the rest of scientific practice, effective use of DH tools requires critical reflection about these relationships. (shrink)

Ecological communities are seldom, if ever, biological individuals. They lack causal boundaries as the populations that constitute communities are not congruent and rarely have persistent functional roles regulating the communities’ higher-level properties. Instead we should represent ecological communities indexically, by identifying ecological communities via the network of weak causal interactions between populations that unfurl from a starting set of populations. This precisification of ecological communities helps identify how community properties remain invariant, and why they have robust characteristics. This respects the (...) diversity and aggregational nature of these complex systems while still vindicating them as units worthy of investigation. (shrink)

Bio-ontologies are digital frameworks for handling biological and biomedical data. They consist of theoretical entities and relations with explicitly defined logical structures and precise definitions, whose purpose is to provide a shared language for representing information to be distributed and integrated across diverse scientific contexts. It is tempting to view bio-ontologies as clear and formal expressions of a scientific community’s ontological commitments about their domain of inquiry, and to view their integration as tantamount to the metaphysical unification of science that (...) some philosophers have envisaged. However, I argue that the local, practical, social and technological factors that influence their design prevent us from straightforwardly reading metaphysical conclusions from them. I discuss these complications and suggest how they can be overcome, revealing more general lessons for the development of a well-founded scientific metaphysics. (shrink)

Three accounts of effective realism (ER) have been advanced to solve three problems for scientific realism: Fraser and Vickers (forthcoming) develop a version of ER about non-relativistic quantum mechanics that they argue is compatible with all the main realist versions (‘interpretations’) of quantum mechanics avoiding the problem of underdetermination among them; Williams (2019) and Fraser (2020b) propose ER about quantum field theory as a response to the problems facing realist interpretations; Robertson and Wilson (forthcoming) propose ER to deal with the (...) dubious ontological status of the entities belonging to superseded theories. This paper argues for the unification of these proposals based on realism about modal structure and the idea of scale relativity of ontology developed by ontic structural realists. This solves problems some or all the accounts of ER face, especially that of making explicit in what way they are realist. Furthermore, we respond to a recent critique that has been raised against the ontic structural realist account of quantum mechanics that we employ. (shrink)

This paper applies the theoretical criteria laid out by D’Arms et al. to various aspects of evolutionary models of signalling. The question that D’Arms et al. seek to answer can be formulated as follows: Are the models that we use to explain the phenomena in question conceptually adequate? The conceptual adequacy question relates the formal aspects of the model to those aspects of the natural world that the model is supposed to capture. Moreover, this paper extends the analysis of D’Arms (...) et al. by asking the following additional question: Are the models that we use sufficient to explain the phenomena in question? The sufficiency question asks what formal resources are minimally required for the model to get the right results most of the time. (shrink)

Mechanisms are often characterized as causal structures and the interventionist account of causation is then used to characterize what it is to be a causal structure. The associated modularity constraint on causal structures has evoked criticism against using the theory as an account of mechanisms, since many mechanisms seem to violate modularity. This paper answers to this criticism by making a distinction between a causal system and a causal structure. It makes sense to ask what the modularity properties of a (...) given causal structure are, but not whether a causal system is modular tout court. The counter-examples to the interventionist account are systems in which a particular structure is modular in variables, but not in parameters. A failure of parameter-modularity does not by itself threaten the interventionist interpretation of the structure and the possibility of causally explaining with that structure, but it does mean that knowledge of the structure is not sufficient to constitutively explain system-level properties of the embedding system. (shrink)

We claim that the process of theoretical model refinement in economics is best characterised as robustness analysis: the systematic examination of the robustness of modelling results with respect to particular modelling assumptions. We argue that this practise has epistemic value by extending William Wimsatt's account of robustness analysis as triangulation via independent means of determination. For economists robustness analysis is a crucial methodological strategy because their models are often based on idealisations and abstractions, and it is usually difficult to tell (...) which idealisations are truly harmful. (shrink)

The recognition that models and simulations play a central role in the epistemology of science is about fifteen years old. Although models had long been discussed as possible foundational units in the logical analysis of scientific knowledge, the philosophical study of modelling as a distinct epistemic practice really got going in the wake of the Models as Mediators anthology edited by Margaret Morrison and Mary Morgan. In spite of the broad agreement that in fact much of science is model-based, however, (...) there is still little agreement on pretty much anything else. What are models? Are they representations or fictions, abstract entities or concrete artifacts? Which functions do they play? Can they explain.. (shrink)

In this work, we explore the epistemic import of the value-ladenness of Neyman-Pearson’s Theory of Testing Hypotheses by reconstructing and extending Daniel Steel’s argument for the legitimate influence of pragmatic values on scientific inference. We focus on how to properly understand N-P’s pragmatic value-ladenness and the epistemic reliability of N-P. We develop an account of the twofold influence of pragmatic values on N-P’s epistemic reliability and replicability. We refer to these two distinguished aspects as “direct” and “indirect”. We discuss the (...) replicability of experiments in terms of the indirect aspect and the replicability of outcomes in terms of the direct aspect. We argue that the influence of pragmatic values is beneficial to N-P’s epistemic reliability and replicability indirectly. We show that while the direct influence of pragmatic values can be beneficial, its negative effects on reliability and replicability are also unavoidable in some cases, with the direct and indirect aspects possibly being incongruent. (shrink)

We show that if among the tested hypotheses the number of true hypotheses is not equal to the number of false hypotheses, then Neyman-Pearson theory of testing hypotheses does not warrant minimal epistemic reliability. We also argue that N-P does not protect from the possible negative effects of the pragmatic value-laden unequal setting of error probabilities on N-P’s epistemic reliability. Most importantly, we argue that in the case of a negative impact no methodological adjustment is available to neutralize it, so (...) in such cases the discussed pragmatic-value-ladenness of N-P inevitably compromises the goal of attaining truth. (shrink)

Recently, several critics of the multiple realizability thesis have argued that philosophers have tended to accept the thesis on too weak grounds. On the one hand, the analytic challenge has problematized how philosophers have treated the multiple realization relation itself, claiming that assessment of the sameness of function and the relevant difference of realizers has been uncritical. On the other hand, it is argued that the purported evidence of the thesis is often left empirically unverified. This paper provides a novel (...) strategy to answer these worries by introducing a role for multiple realizability in the context of biological engineering. In the field of synthetic biology, bioengineers redesign the evolutionary realizations of biological functions, even constructing artificial chemical surrogates in the laboratory. I show how in the rational design approach to biological engineering, multiple realizability can function as a design heuristic in which the sameness of function and difference of realizers can be controlled. Although practically motivated, this engineering approach has also a theoretical, exploratory component that can be used to study the empirical limitations of multiple realizability. Successful realization of the engineering designs would amount to a concrete demonstration of multiple realizability, taking evidence for MRT beyond what is readily found in nature. (shrink)

Our thesis is that there is no moral requirement to refrain from emitting reasonable amounts of greenhouse gases solely in order to enjoy oneself. Joyriding in a gas guzzler provides our paradigm example. We first distinguish this claim that there is no moral requirement to refrain from joyguzzling from other more radical claims. We then review several different proposed objections to our view. These include: the claim that joyguzzling exemplifies a vice, causes or contributes to harm, has negative expected value, (...) exceeds our fair share of global emissions, and undermines political duties. We show why none of these objections succeeds and conclude that no good reason has yet been proposed that shows why joyguzzling violates a moral requirement. (shrink)

What clinicians, biomedical scientists, and other health care professionals know as individuals or as groups and how they come to know and use knowledge are central concerns of medical epistemology. Activities associated with knowledge production and use are called epistemic practices. Such practices are considered in biomedical and clinical literatures, social sciences of medicine, philosophy of science and philosophy of medicine, and also in other nonmedical literatures. A host of different kinds of knowledge claims have been identified, each with different (...) uses and logics of justification. A general framework is needed to situate these diverse contributions in medical epistemology, so we can see how they fit together. But developing such a framework turns out to be quite tricky. In this survey, three possible frameworks are considered along with the difficulties associated with each of them. The essay concludes with a fourth framework, which considers any epistemology as part of a practice that is oriented toward overcoming errors that emerge in antecedently given practices where knowledge is developed and used. As medicine indirectly advances health by directly mitigating disease, so epistemology indirectly advances knowledge by directly mitigating error. (shrink)

This essay considers implications of formal mereologies and ontologies for medical metaphysics. Edward Fried’s extensional mereological account of the human body is taken as representative of a prominent strand in analytic metaphysics that has close affinities with medical positivism. I show why such accounts fail. First, I consider how Fried attempts to make sense of the medical case of Barney Clark, the first recipient of an artificial heart, and show that his analytic metaphysical categories do not have the right kind (...) of fit with the case. A proper medical metaphysic should involve a richer two way dialogue with medicine, and it should not just “apply” formal accounts worked out in other settings. Second, I argue that any effort to account for real wholes with extensional mereological sums requires all sorts of ad hoc, supplementary mechanisms that do the real work, and the full repertoire of these mechanisms involves inconsistencies and semantic shifts. Finally, I consider an alternative strand of work on non-extensional whole/part relations that is closer to medicine and that can deepen reflection on some core problems in bioethics, for example, associated with the determination of death when an organism ceases to function as a whole. In addition to the utility such formal ontologies have for addressing traditional problems such as the determination of death, philosophers of medicine should appreciate the increasingly influential role such formal tools are playing in the development of data system ontologies. Assumptions integral to these ontologies have far reaching implications for the way future research and practice in medicine will be conducted, and much greater critical reflection is needed on the full range of issues associated with the development and use of such medical ontologies. (shrink)

Relying on the notion of “overlapping perspectives,” this paper argues that entity realism and perspectivism are complementary. According to entity realism, it is justified to maintain a positive attitude toward the existence of unobservable entities with which multiple experimental interactions are possible. Perspectivism also explains that our beliefs about these entities are bounded by historically contingent theoretical and instrumental perspectives. The argument of the paper is developed through a discussion of Ronald Giere’s versions of realism: entity realism, constructive realism, and (...) perspectival realism. (shrink)

This discussion centers on two desiderata: the role of measurement in information-gathering and physical interaction in scientific practice. By taking inspiration from van Fraassen’s view, we present a methodological account of perspectival measurement that addresses empirical practice where there is complex intervention, disagreeing results, and limited theory. The specific aim of our account is to provide a methodological prescription for developing measurement processes in the context of limited theory. The account should be useful to philosophers of science, who are interested (...) in the intersection between representation and intervention; scientists, who are interested in methodological suggestions for theory-development and reliability; and interdisciplinary researchers, who are interested in the intersections between the pandemic, built environments, and social processes. We apply the process-view of measurement to COVID-19, specifically, measuring replication in the SARS-CoV-2 virus. The aim is to show that our account tracks key elements—manipulation/intervention, independence, invariance, and theory-development—by organizing unfolding measurement processes. Additionally, we use our account to make prescriptive suggestions for measurement practice in the COVID-19 context by discussing the need to broaden measurement perspective on interaction, manipulation, and production. (shrink)

In experimental settings, scientists often “make” new things, in which case the aim is to intervene in order to produce experimental objects and processes—characterized as ‘effects’. In this discussion, I illuminate an important performative function in measurement and experimentation in general: intervention-based experimental production (IEP). I argue that even though the goal of IEP is the production of new effects, it can be informative for causal details in scientific representations. Specifically, IEP can be informative about causal relations in: regularities under (...) study; ‘intervention systems’, which are measurement/experimental systems; and new technological systems. (shrink)

In experimental settings, scientists often “make” new things, in which case the aim is to intervene in order to produce experimental objects and processes—characterized as ‘effects’. In this discussion, I illuminate an important performative function in measurement and experimentation in general: intervention-based experimental production. I argue that even though the goal of IEP is the production of new effects, it can be informative for causal details in scientific representations. Specifically, IEP can be informative about causal relations in: regularities under study; (...) ‘intervention systems’, which are measurement/experimental systems; and new technological systems. (shrink)

This article addresses how the Iranian-born philosopher Reza Negarestani has negotiated human distinctiveness in the course of his intellectual journey from speculative realism to inhuman rationalism (Rather than rationalist inhumanism, as some sources have it (Anon 2021)). Moving from challenging the correlationism of post-Kantian Western philosophy, via critiques of the Deleuze and Guattari’s war machine, Nick Land’s accelerationism, and Ray Brassier’s nihilism, Negarestani eventually turns to the neo-pragmatists of the Pittsburgh School and their reflections on reason, normativity, and praxis. The (...) mapping of this trajectory is divided into four parts: Having already discussed the political theology of Reza Negarestani elsewhere (Kersten, World Futures: The Journal of New Paradigm Research, 78(2–4), 256 267, 2022), the first part of this article briefly introduces Reza Negarestani’s early theory fiction as an exponent of speculative realism (Negarestani 2008), followed by two sections dedicated to close readings of Negarestani’s investigations of the inhuman (Negarestani 2011 and 2014). The examination of these writings will demonstrate how they have served as prolegomena to his next book-length publication, Intelligence and Spirit (2018), a connection that will be briefly assessed in the final part. (shrink)