These preprints were automatically compiled into a PDF from the collection of papers deposited in PhilSci-Archive in conjunction with the PSA 2018.

Neuroscience is a laboratory-based science that spans multiple levels of analysis from molecular genetics to behavior. At every level of analysis experiments are designed in order to answer empirical questions about phenomena of interest. Understanding the nature and structure of experimentation in neuroscience is fundamental for assessing the quality of the evidence produced by such experiments and the kinds of claims that are warranted by the data. This article provides a general conceptual framework for thinking about evidence and experimentation in (...) neuroscience with a particular focus on two research areas: cognitive neuroscience and cognitive neurobiology. (shrink)

In the quest to discover the neural bases of cognition, rigorous behavioral tools are equally as important as sophisticated tools for neural intervention. This paper evaluates several episodes in the development of a novel behavioral tool for rodent cognitive testing, the rodent touchscreen operant chamber. Using conceptual tools on offer in the philosophical literature on exploratory experimentation and control, I illuminate how optimization of this behavioral tool and an understanding of the causal knowledge it may be used to generate historically (...) has involved dynamic interplay between community-driven exploratory practices operating in parallel with causal hypothesis-driven research. (shrink)

Descriptive accounts of the nature of explanation in neuroscience and the global goals of such explanation have recently proliferated in the philosophy of neuroscience and with them new understandings of the experimental practices of neuroscientists have emerged. In this paper, I consider two models of such practices; one that takes them to be reductive; another that takes them to be integrative. I investigate those areas of the neuroscience of learning and memory from which the examples used to substantiate these models (...) are culled, and argue that the multiplicity of experimental protocols used in these research areas presents specific challenges for both models. In my view, these challenges have been overlooked largely because philosophers have hitherto failed to pay sufficient attention to fundamental features of experimental practice. I demonstrate that when we do pay attention to such features, evidence for reduction and integrative unity in neuroscience is simply not borne out. I end by suggesting some new directions for the philosophy of neuroscience that pertain to taking a closer look at the nature of neuroscientific experiments. (shrink)

How to regard the weight we give to a proposition on the grounds of its being endorsed by an authority? I examine this question as it is raised within the epistemology of science, and I argue that “authority-based weight” should receive special handling, for the following reason. Our assessments of other scientists’ competence or authority are nearly always provisional, in the sense that to save time and money, they are not made nearly as carefully as they could be---indeed, they are (...) typically made on the basis of only a small portion of the available evidence. Consequently, we need to represent the authority-based elements of our epistemic attitudes in such a way as to allow the later revision of those elements, in case we decide in the light of new priorities that a more conscientious assessment is warranted. I look to the literature in confirmation theory, statistics, and economics for a semiformal model of this revision process, and make a particular proposal of my own. The discussion also casts some light on the question of why certain aspects of science’s epistemic state are not made public. (shrink)

Medical scientists employ ‘quality assessment tools’ (QATs) to measure the quality of evidence from clinical studies, especially randomized controlled trials (RCTs). These tools are designed to take into account various methodological details of clinical studies, including randomization, blinding, and other features of studies deemed relevant to minimizing bias and error. There are now dozens available. The various QATs on offer differ widely from each other, and second-order empirical studies show that QATs have low inter-rater reliability and low inter-tool reliability. This (...) is an instance of a more general problem I call the underdetermination of evidential significance. Disagreements about the strength of a particular piece of evidence can be due to different—but in principle equally good—weightings of the fine-grained methodological features which constitute QATs. (shrink)

After describing the disorder of psychopathy, I examine the theories and the evidence concerning the psychopaths’ deficient moral capacities. I first examine whether or not psychopaths can pass tests of moral knowledge. Most of the evidence suggests that they can. If there is a lack of moral understanding, then it has to be due to an incapacity that affects not their declarative knowledge of moral norms, but their deeper understanding of them. I then examine two suggestions: it is their deficient (...) practical reason or their stunted emotions that are at fault. The evidence supports both explanations. I conclude with an overview of the debate concerning whether they are morally or legally responsible for their actions. (shrink)

When scientists seek further confirmation of their results, they often attempt to duplicate the results using diverse means. To the extent that they are successful in doing so, their results are said to be robust. This paper investigates the logic of such "robustness analysis" [RA]. The most important and challenging question an account of RA can answer is what sense of evidential diversity is involved in RAs. I argue that prevailing formal explications of such diversity are unsatisfactory. I propose a (...) unified, explanatory account of diversity in RAs. The resulting account is, I argue, truer to actual cases of RA in science; moreover, this account affords us a helpful, new foothold on the logic undergirding RAs. (shrink)

Cultural phylogenetics has made remarkable progress by relying on methods originally developed in biology. But biological and cultural evolution do not always proceed according to the same principles. So what, if anything, could justify the use of phylogenetic methods to reconstruct the evolutionary history of culture? In this paper, we describe models used to assess the reliability of inference methods and show how these models play an underappreciated role in addressing that question. The notion of reliability is of course central (...) to these models. As we explain, a common way of understanding reliability is in terms of low error rates. A careful look at case studies in cultural phylogenetics suggests that reliability models partly corroborate this understanding of reliability but also raises points of tension. We conclude by hinting at a few ways forward. (shrink)

A main message from the causal modelling literature in the last several decades is that under some plausible assumptions, there can be statistically consistent procedures for inferring (features of) the causal structure of a set of random variables from observational data. But whether we can control the error probabilities with a finite sample size depends on the kind of consistency the procedures can achieve. It has been shown that in general, under the standard causal Markov and Faithfulness assumptions, the procedures (...) can only be pointwise but not uniformly consistent without substantial background knowledge. This implies the impossibility of choosing a finite sample size to control the worst case error probabilities. In this paper, I consider the simpler task of inferring causal directions when the skeleton of the causal structure is known, and establish a similarly negative result concerning the possibility of controlling error probabilities. Although the result is negative in form, it has an interesting positive implication for causal discovery methods. (shrink)

Much of the recent work on the epistemology of causation has centered on two assumptions, known as the Causal Markov Condition and the Causal Faithfulness Condition. Philosophical discussions of the latter condition have exhibited situations in which it is likely to fail. This paper studies the Causal Faithfulness Condition as a conjunction of weaker conditions. We show that some of the weaker conjuncts can be empirically tested, and hence do not have to be assumed a priori. Our results lead to (...) two methodologically significant observations: (1) some common types of counterexamples to the Faithfulness condition constitute objections only to the empirically testable part of the condition; and (2) some common defenses of the Faithfulness condition do not provide justification or evidence for the testable parts of the condition. It is thus worthwhile to study the possibility of reliable causal inference under weaker Faithfulness conditions. As it turns out, the modification needed to make standard procedures work under a weaker version of the Faithfulness condition also has the practical effect of making them more robust when the standard Faithfulness condition actually holds. This, we argue, is related to the possibility of controlling error probabilities with finite sample size (“uniform consistency”) in causal inference. (shrink)

Obviously medicine should be evidence-based. The issues lie in the details: what exactly counts as evidence? Do certain kinds of evidence carry more weight than others? (And if so why?) And how exactly should medicine be based on evidence? When it comes to these details, the evidence-based medicine (EBM) movement has got itself into a mess – or so it will be argued. In order to start to resolve this mess, we need to go 'back to basics'; and that means (...) turning to the philosophy of science. The theory of evidence, or rather the logic of the interrelations between theory and evidence, has always been central to the philosophy of science – sometimes under the alias of the 'theory of confirmation'. When taken together with a little philosophical commonsense, this logic can help us move towards a position on evidence in medicine that is more sophisticated and defensible than anything that EBM has been able so far to supply. (shrink)

There are a variety of topics in the philosophy of science that need to be rethought, in varying degrees, after one pays careful attention to the ways in which computer simulations are used in the sciences. There are a number of conceptual issues internal to the practice of computer simulation that can benefit from the attention of philosophers. This essay surveys some of the recent literature on simulation from the perspective of the philosophy of science and argues that philosophers have (...) a lot to learn by paying closer attention to the practice of simulation. (shrink)

The orthodox view in statistics has it that frequentism and Bayesianism are diametrically opposed—two totally incompatible takes on the problem of statistical inference. This paper argues to the contrary that the two approaches are complementary and need to mesh if probabilistic reasoning is to be carried out correctly.

Incommensurability of scientific theories, as conceived by Thomas Kuhnand Paul Feyerabend, is thought to be a major or even insurmountable obstacletothe empirical comparison of these theories. I examine this problem in light ofaconcrete case from the history of experimental biology, namely the oxidativephosphorylation controversy in biochemistry (ca. 1961-1977). After a briefhistorical exposition, I show that the two main competing theories which werethe subject of the ox-phos controversy instantiate some of the characteristicfeatures of incommensurable theories, namely translation failure,non-corresponding predictions, and different (...) claims about what kinds ofentitiesexist in the world. By examining how the controversy was eventually resolved, Ithen show that at least this pair of incommensurable theories couldneverthelessbe empirically compared. (shrink)

As machine learning has gradually entered into ever more sectors of public and private life, there has been a growing demand for algorithmic explainability. How can we make the predictions of complex statistical models more intelligible to end users? A subdiscipline of computer science known as interpretable machine learning (IML) has emerged to address this urgent question. Numerous influential methods have been proposed, from local linear approximations to rule lists and counterfactuals. In this article, I highlight three conceptual challenges that (...) are largely overlooked by authors in this area. I argue that the vast majority of IML algorithms are plagued by (1) ambiguity with respect to their true target; (2) a disregard for error rates and severe testing; and (3) an emphasis on product over process. Each point is developed at length, drawing on relevant debates in epistemology and philosophy of science. Examples and counterexamples from IML are considered, demonstrating how failure to acknowledge these problems can result in counterintuitive and potentially misleading explanations. Without greater care for the conceptual foundations of IML, future work in this area is doomed to repeat the same mistakes. (shrink)

In this paper we consider the problem of how to measure the strength of statistical evidence from the perspective of evidence amalgamation operations. We begin with a fundamental measurement amalgamation principle : for any measurement, the inputs and outputs of an amalgamation procedure must be on the same scale, and this scale must have a meaningful interpretation vis a vis the object of measurement. Using the p value as a candidate evidence measure, we examine various commonly used approaches to amalgamation (...) of evidence across similar studies, including standard forms of meta-analysis. We show that none of these methods satisfies MAP. Thus an underlying measurement problem remains. We argue that a successful approach to evidence amalgamation necessitates a solution to the problem of evidence measurement, and we suggest some lines of reasoning that might guide further work towards this end. (shrink)

The epistemology of studies addressing questions about historical and prehistorical phenomena is a subject of increasing discussion among philosophers of science. A related field of inquiry that has yet to be connected to this topic is the epistemology of climate science. Branching these areas of research, I show how variety-of-evidence reasoning accounts for scientific inferences about the past by detailing a case study in paleoclimate reconstruction. This analysis aims to clarify the logic of historical inquiry in general and, by focusing (...) on a case study about climate change, it offers an epistemic account of a particular discipline that is of environmental and social importance. (shrink)

The function and legitimacy of values in decision making is a critically important issue in the contemporary analysis of science. It is particularly relevant for some of the more application-oriented areas of science, specifically decision-oriented science in the field of regulation of technological risks. Our main objective in this paper is to assess the diversity of roles that non-cognitive values related to decision making can adopt in the kinds of scientific activity that underlie risk regulation. We start out, first, by (...) analyzing the issue of values with the help of a framework taken from the wider philosophical debate on science and values. Second, we study the principal conceptualizations used by scholars who have applied them to numerous case studies. Third, we appraise the links between those conceptualizations and learning processes in decision-oriented science. In this, we recur to the concept of methodological learning, i.e., learning about the best methodologies for generating knowledge that is useful for science-based regulatory decisions. The main result of our analysis is that non-cognitive values can contribute to methodological improvements in science in three principal ways: as basis for critical analysis, for contextualizing methodologies, and for establishing the burden of proof. (shrink)

Why do people get sick? I argue that a disease explanation is best thought of as causal network instantiation, where a causal network describes the interrelations among multiple factors, and instantiation consists of observational or hypothetical assignment of factors to the patient whose disease is being explained. This paper first discusses inference from correlation to causation, integrating recent psychological discussions of causal reasoning with epidemiological approaches to understanding disease causation, particularly concerning ulcers and lung cancer. It then shows how causal (...) mechanisms represented by causal networks can contribute to reasoning involving correlation and causation. The understanding of causation and causal mechanisms provides the basis for a presentation of the causal network instantiation model of medical explanation. (shrink)

Models carry the meaning of science. This puts a tremendous burden on the process of model selection. In general practice, models are selected on the basis of their relative goodness of fit to data penalized by model complexity. However, this may not be the most effective approach for selecting models to answer a specific scientific question because model fit is sensitive to all aspects of a model, not just those relevant to the question. Model Structural Adequacy analysis is proposed as (...) a means to select models based on their ability to answer specific scientific questions given the current understanding of the relevant aspects of the real world. (shrink)

Optogenetic techniques are described as “revolutionary” for the unprecedented causal control they allow neuroscientists to exert over neural activity in awake behaving animals. In this paper, I demonstrate by means of a case study that optogenetic techniques will only illuminate causal links between the brain and behavior to the extent that their error characteristics are known and, further, that determining these error characteristics requires comparison of optogenetic techniques with techniques having well known error characteristics and consideration of the broader neural (...) and behavioral context in which the targets of optogenetic interventions are situated. (shrink)

Many philosophers are skeptical about the scientific value of the concept of biological information. However, several have recently proposed a more positive view of ascribing information as an exercise in scientific modeling. I argue for an alternative role: guiding empirical data collection for the sake of theorizing about the evolution of semantics. I clarify and expand on Bergstrom and Rosvall’s suggestion of taking a “diagnostic” approach that defines biological information operationally as a procedure for collecting empirical cases. The more recent (...) modeling-based accounts still perpetuate a theory-centric view of scientific concepts, which motivated philosophers’ misplaced skepticism in the first place. (shrink)

Robustness is a common platitude: hypotheses are better supported with evidence generated by multiple techniques that rely on different background assumptions. Robustness has been put to numerous epistemic tasks, including the demarcation of artifacts from real entities, countering the “experimenter’s regress,” and resolving evidential discordance. Despite the frequency of appeals to robustness, the notion itself has received scant critique. Arguments based on robustness can give incorrect conclusions. More worrying is that although robustness may be valuable in ideal evidential circumstances (i.e., (...) when evidence is concordant), often when a variety of evidence is available from multiple techniques, the evidence is discordant. †To contact the author, please write to: Jacob Stegenga, Department of Philosophy, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093; e‐mail: [email protected]. (shrink)

Making sense of why something succeeded or failed is central to scientific practice: it provides an interpretation of what happened, i.e. an hypothesized explanation for the results, that informs scientists’ deliberations over their next steps. In philosophy, the realism debate has dominated the project of making sense of scientists’ success and failure claims, restricting its focus to whether truth or reliability best explain science’s most secure successes. Our aim, in contrast, will be to expand and advance the practice-oriented project sketched (...) by Arthur Fine in his work on the Natural Ontological Attitude. An important obstacle to articulating a positive program, we suggest, has been overlooking how scientists adopt standardized rules and procedures in order to define and operationalize meanings for success and failure relative to their situated goals. To help fill this gap, we introduce two new ideas, design specifications and track records, and show how they advance our ability to make sense of scientific modeling practices while maintaining a deflationary stance toward the realism debate. (shrink)

We introduce a new type of pluralism about biological function that, in contrast to existing, demonstrates a practical integration among the term’s different meanings. In particular, we show how to generalize Sandra Mitchell’s notion of integrative pluralism to circumstances where multiple epistemic tools of the same type are jointly necessary to solve scientific problems. We argue that the multiple definitions of biological function operate jointly in this way based on how biologists explain the evolution of protein function. To clarify how (...) our account relates to existing views, we introduce a general typology for monist and pluralist accounts along with standardized criteria for judging which is best supported by evidence. (shrink)

Introduces a series of articles which deals with the relationship between history of science and philosophy of science.; Introduces a series of articles which deals with the relationship between history of science and philosophy of science.

I describe two traditions of philosophical accounts of evidence: one characterizes the notion in terms of signs of success, the other characterizes the notion in terms of conditions of success. The best examples of the former rely on the probability calculus, and have the virtues of generality and theoretical simplicity. The best examples of the latter describe the features of evidence which scientists appeal to in practice, which include general features of methods, such as quality and relevance, and general features (...) of evidence, such as patterns in data, concordance with other evidence, and believability of the evidence. Two infamous episodes from biomedical research help to illustrate these features. Philosophical characterization of these latter features—conditions of success—has the virtue of potential relevance to, and descriptive accuracy of, practices of experimental scientists. (shrink)

The likelihood principle (LP) is a core issue in disagreements between Bayesian and frequentist statistical theories. Yet statements of the LP are often ambiguous, while arguments for why a Bayesian must accept it rely upon unexamined implicit premises. I distinguish two propositions associated with the LP, which I label LP1 and LP2. I maintain that there is a compelling Bayesian argument for LP1, based upon strict conditionalization, standard Bayesian decision theory, and a proposition I call the practical relevance principle. In (...) contrast, I argue that there is no similarly compelling argument for or against LP2. I suggest that these conclusions lead to a restrictedly pluralistic view of Bayesian confirmation measures. (shrink)

Amalgamating evidence of different kinds for the same hypothesis into an overall confirmation is analogous, I argue, to amalgamating individuals’ preferences into a group preference. The latter faces well-known impossibility theorems, most famously “Arrow’s Theorem”. Once the analogy between amalgamating evidence and amalgamating preferences is tight, it is obvious that amalgamating evidence might face a theorem similar to Arrow’s. I prove that this is so, and end by discussing the plausibility of the axioms required for the theorem.

Normal 0 0 1 85 487 UBC 4 1 598 11.773 0 0 0 Under what conditions is the failure to have evidence that p evidence that p is false? Absent evidence reasoning is common in many sciences, including astronomy, archeology, biology and medicine. An often-repeated epistemological motto is that “the absence of evidence is not evidence of absence.” Analysis of absent evidence reasoning usually takes place in a deductive or frequentist hypothesis-testing framework. Instead, I develop a Bayesian analysis of (...) this motto and prove that, under plausible assumptions about the nature of evidence, the absence of evidence is evidence of absence. (shrink)

Some accounts of evidence regard it as an objective relationship holding between data and hypotheses, perhaps mediated by a testing procedure. Mayo’s error-statistical theory of evidence is an example of such an approach. Such a view leaves open the question of when an epistemic agent is justified in drawing an inference from such data to a hypothesis. Using Mayo’s account as an illustration, I propose a framework for addressing the justification question via a relativized notion, which I designate security , (...) meant to conceptualize practices aimed at the justification of inferences from evidence. I then show how the notion of security can be put to use by showing how two quite different theoretical approaches to model criticism in statistics can both be viewed as strategies for securing claims about statistical evidence. (shrink)

Many philosophers have claimed that evidence for a theory is better when multiple independent tests yield the same result, i.e., when experimental results are robust. Little has been said about the grounds on which such a claim rests, however. The present essay presents an analysis of the evidential value of robustness that rests on the fallibility of assumptions about the reliability of testing procedures and a distinction between the strength of evidence and the security of an evidence claim. Robustness can (...) enhance the security of an evidence claim either by providing what I call second-order evidence, or by providing back-up evidence for a hypothesis. (shrink)

While epistemic justification is a central concern for both contemporary epistemology and philosophy of science, debates in contemporary epistemology about the nature of epistemic justification have not been discussed extensively by philosophers of science. As a step toward a coherent account of scientific justification that is informed by, and sheds light on, justificatory practices in the sciences, this paper examines one of these debates—the internalist-externalist debate—from the perspective of objective accounts of scientific evidence. In particular, we focus on Deborah Mayo’s (...) error-statistical theory of evidence because it is a paradigmatically objective theory of evidence that is strongly informed by methodological practice. We contend that from the standpoint of such an objective theory of evidence, justification in science has both externalist and internalist characteristics. In reaching this conclusion, however, we find that the terms of the contemporary debate between internalists and externalists have to be redefined to be applicable to scientific contexts. (shrink)

: Peter Galison has recently claimed that twentieth-century microphysics has been pursued by two distinct experimental traditions--the image tradition and the logic tradition--that have only recently merged into a hybrid tradition. According to Galison, the two traditions employ fundamentally different forms of experimental argument, with the logic tradition using statistical arguments, while the image tradition strives for non-statistical demonstrations based on compelling ("golden") single events. I show that discoveries in both traditions have employed the same statistical form of argument, even (...) when basing discovery claims on single, golden events. Where Galison sees an epistemic divide between two communities that can only be bridged by a creole- or pidgin-like "interlanguage," there is in fact a shared commitment to a statistical form of experimental argument. (shrink)

I consider the error-statistical account as both a theory of evidence and as a theory of inference. I seek to show how inferences regarding the truth of hypotheses can be upheld by avoiding a certain kind of alternative hypothesis problem. In addition to the testing of assumptions behind the experimental model, I discuss the role of judgments of implausibility. A benefit of my analysis is that it reveals a continuity in the application of error-statistical assessment to low-level empirical hypotheses and (...) highly general theoretical principles. This last point is illustrated with a brief sketch of the issues involved in the parametric framework analysis of tests of physical theories such as General Relativity and of fundamental physical principles such as the Einstein Equivalence Principle. (shrink)

Some prominent accounts of scientific evidence treat evidence as an unrelativized concept. But whether belief in a hypothesis is justified seems relative to the epistemic situation of the believer. The issue becomes yet more complicated in the context of group epistemic agents, for then one confronts the problem of relativizing to an epistemic situation that may include conflicting beliefs. As a step toward resolution of these difficulties, an ideal of justification is here proposed that incorporates both an unrelativized evidence requirement (...) and the requirement of the security of the evidence on which a conclusion from data is based. The latter requirement incorporates the consideration of epistemic modal statements. (shrink)

Engineering deals with different problem situations than science, and theories in engineering are different to theories in science. So, the growth of knowledge in engineering is also different to that in science. Nonetheless, methodological issues in engineering epistemology can be explored by adapting frameworks already established in the philosophy of science. In this paper I use critical rationalism and Popper’s three worlds framework to investigate error elimination and the growth of knowledge in engineering. I discuss engineering failure arising from the (...) falsification of engineering theories, and present taxonomies of the sources of falsification and responses to falsification in engineering. From this I discuss contexts of research and design in engineering, ad hoc rescue of engineering theories, and engineering assurance. (shrink)

According to influential accounts of scientific method, such as critical rationalism, scientific knowledge grows by repeatedly testing our best hypotheses. But despite the popularity of hypothesis tests in statistical inference and science in general, their philosophical foundations remain shaky. In particular, the interpretation of non-significant results—those that do not reject the tested hypothesis—poses a major philosophical challenge. To what extent do they corroborate the tested hypothesis, or provide a reason to accept it? Popper sought for measures of corroboration that could (...) adequately answer this question. According to Popper, corroboration is different from probability-raising, and grounded in the predictive success and testability of a hypothesis. As such, corroboration becomes an indicator of the scientific value of a hypothesis and guides our practical preferences over hypotheses that have been subjected to severe tests. This article proves two impossibility results for corroboration measures based on statistical relevance. The generality of these results shows that Popper’s qualitative characterization of corroboration must be misguided. I explore what a more promising and scientifically useful concept of corroboration could look like. (shrink)

Subjective Bayesianism is a major school of uncertain reasoning and statistical inference. It is often criticized for a lack of objectivity: it opens the door to the influence of values and biases, evidence judgments can vary substantially between scientists, it is not suited for informing policy decisions. My paper rebuts these concerns by connecting the debates on scientific objectivity and statistical method. First, I show that the above concerns arise equally for standard frequentist inference with null hypothesis significance tests. Second, (...) the criticisms are based on specific senses of objectivity with unclear epistemic value. Third, I show that Subjective Bayesianism promotes other, epistemically relevant senses of scientific objectivity—most notably by increasing the transparency of scientific reasoning. (shrink)

Scientific and statistical inferences build heavily on explicit, parametric models, and often with good reasons. However, the limited scope of parametric models and the increasing complexity of the studied systems in modern science raise the risk of model misspecification. Therefore, I examine alternative, data-based inference techniques, such as bootstrap resampling. I argue that their neglect in the philosophical literature is unjustified: they suit some contexts of inquiry much better and use a more direct approach to scientific inference. Moreover, they make (...) more parsimonious assumptions and often replace theoretical understanding and knowledge about mechanisms by careful experimental design. Thus, it is worthwhile to study in detail how nonparametric models serve as inferential engines in science. (shrink)