Journal Name: Semiotica Issue: Ahead of print.

The question of whether or not to partition data for the purposes of inferring phylogenetic hypotheses remains controversial. Opinions have been especially divided since Kluge's (1989, Systematic Zoology 38, 7–25) claim that data partitioning violates the requirement of total evidence (RTE). Unfortunately, advocacy for or against the RTE has not been based on accurate portrayals of the requirement. The RTE is a basic maxim for non-deductive inference, stipulating that evidence must be considered if it has relevance to an inference. Evidence (...) is relevant if it has a positive or negative effect on a given conclusion. In the case of ℈partitioned’ phylogenetic inferences, the RTE is violated, and the basis for rational belief in any conclusion is compromised, unless it is shown that the partitions are evidentially irrelevant to one another. The goal of phylogenetic systematics is to hypothesize past causal conditions to account for observed shared similarities among two or more species. Such inferences are non-deductive, necessitating consideration of the RTE. Some phylogeneticists claim the parsimony criterion as justification for the RTE. There is no relation between the two – parsimony is a relation between a hypothesis and causal question(s). Parsimony does not dictate the content of premises prior to an inference. ℈Taxonomic congruence,’ ℈supertrees,’ and ℈conditional combination’ methods violate the RTE. Taxonomic congruence and supertree methods also fail to achieve the intended goal of phylogenetic inference, such that ℈consensus trees’ and ℈supertrees’ lack an empirical basis. ℈Conditional combination’ is problematic because hypotheses derived from partitioned data cannot be compared – a causal hypothesis inferred to account for a set of effects only has relevance to those effects, not any comparative relevance to other causal hypotheses. A similar problem arises in the comparisons of hypotheses derived from different causal theories. (shrink)

Framing systematics as a field consistent with scientific inquiry entails that inferences of phylogenetic hypotheses have the goal of producing accounts of past causal events that explain differentially shared characters among organisms. Linking observations of characters to inferences occurs by way of why-questions implied by data matrices. Because of their form, why-questions require the use of common-cause theories. Such theories in phylogenetic inferences include natural selection and genetic drift. Selection or drift can explain ‘morphological’ characters but selection cannot be causally (...) applied to sequences since fitness differences cannot be directly associated with individual nucleotides or amino acids. The relation of selection to sequence data is by way of downward or top-down causation from those phenotypes upon which selection occurs. The application of phylogenetic inference to explain sequence data is thus restricted to instances where drift is the relevant theory; those nucleotides or amino acids that can be explained via downward causation are precluded from inclusion in the data matrix. The restrictions on the inclusion of sequence data in phylogenetic inferences equally apply to species hypotheses, precluding the more restrictive approach known as DNA barcoding. Not being able to discern drift and selection as relevant causal mechanisms can severely constrain the inclusion and explanations of sequence data. Implications of such exclusion are discussed in relation to the requirement of total evidence. (shrink)

Three competing ‘methods’ have been endorsed for inferring phylogenetic hypotheses: parsimony, likelihood, and Bayesianism. The latter two have been claimed superior because they take into account rates of sequence substitution. Can rates of substitution be justified on its own accord in inferences of explanatory hypotheses? Answering this question requires addressing four issues: (1) the aim of scientific inquiry, (2) the nature of why-questions, (3) explanatory hypotheses as answers to why-questions, and (4) acknowledging that neither parsimony, likelihood, nor Bayesianism are inferential (...) actions leading to explanatory hypotheses. The aim of scientific inquiry is to acquire causal understanding of effects. Observation statements of organismal characters lead to implicit or explicit why-questions. Those questions, conveyed in data matrices, assume the truth of observation statements, which is contrary to subsequently invoking substitution rates within inferences to phylogenetic hypotheses. Inferences of explanatory hypotheses are abductive in form, such that some version of an evolutionary theory(ies) is/are included or implied. If rates of sequence evolution are to be considered, it must be done prior to, rather than within abduction, which requires renaming those putatively-shared nucleotides subject to substitution rates. There are, however, no epistemic grounds for renaming characters to accommodate rates, calling into question the legitimacy of causally accounting for sequence data. (shrink)

Peirce made repeated attempts to clarify what he understood as abduction or creative reasoning in scientific discoveries. In this article, we draw on past and recent scholarship on Peirce’s later accounts of abduction to put a case for how teachers can apply his ideas productively to elicit and guide student creative reasoning in the science classroom. We focus on (a) his rationale for abduction, (b) conditions he recognised as necessary to support this speculative reasoning, (c) pragmatic strategies to guide inquiry (...) and test conjectural hypotheses, and (d) his growing recognition of creative dimensions to reasoning beyond abductive inference-making. We illustrate this case through examples of a guided inquiry approach to student claim-making in the science classroom. (shrink)

Following the Peirce’s proposal drawn in the Neglected Argument, here we focus on the equivalence, from the generative and methodological point of view, of what we will call the religious and scientific abductive experiences. To articulate these connections, we also rely on William James's Gifford Lectures collected under the title The Varieties of Religious Experience. Moreover, we study extensively the universality of the Musement which is related to the mental processes that lead to the generation of the most creative abductions; (...) finally, we fully identify the Musement with a recent discovery of neuroscience, the brain’s default mode network. (shrink)

Here, I focus on deviations of intent, from that expressed by the standard or ordinary use of language, in instances where abductive reasoning plays a necessary role. In such cases, speakers usually utter some “mysterious” words based on the assumed abductive capability of their interlocutors. In order to cause the desired effect in the audience, the speaker relies on the hearer’s knowledge of the relevant common dialogue framework and thus uses the utterance as an abductive trigger. For purposes of explanation, (...) I present a curious kind of fallacy: ironic fallacy. (shrink)

It is usually accepted that deductions are non-informative and monotonic, inductions are informative and nonmonotonic, abductions create hypotheses but are epistemically irrelevant, and both deductions and inductions can’t provide new insights. In this article, I attempt to provide a more cohesive view of the subject with the following hypotheses: (1) the paradigmatic examples of deductions, such as modus ponens and hypothetical syllogism, are not inferential forms, but coherence requirements for inferences; (2) since any reasoner aims to be coherent, any inference (...) must be deductive; (3) a coherent inference is an intuitive process where the premises should be taken as sufficient evidence for the conclusion, which on its turn should be viewed as necessary evidence for the premises in some modal range; (4) inductions, properly understood, are abductions, but there are no abductions beyond the fact that in any inference the conclusion should be regarded as necessary evidence for the premises; (5) monotonicity is not only compatible with the retraction of past inferences given new information, but it is a requirement for it; (6) this explanation of inferences holds true for discovery processes, predictions and trivial inferences. (shrink)

This thesis is concerned with establishing a bridge between matters of aesthetics and epistemology, by investigating the mechanisms through which artworks allow agents to derive knowledge through the former’s manipulation. It is proposed that, in order to understand the epistemic potential of artworks, we need to approach them as diagrams, in the sense developed by Charles Peirce. The background upon which the arguments are developed are mainly those of American Pragmatism – with a special emphasis on primary literature from Charles (...) Sanders Peirce about semiotics and inquiry, and John Dewey about aesthetics. It is introduced that the manipulation upon artworks can be an example of an inquiry process, due to artworks’ diagrammatic symbol-type-token structure, which embody the logical relations of abduction, deduction and induction. Through Peirce’s definition of inquiry, and Dewey’s definition of an aesthetic experience, it is possible to defend that artworks deliberate create states of doubt and chance as to stimulate and guide inquiry as a way to achieve an aesthetic experience, corroborating to the claim that inquiry processes and aesthetic experience share the same ontological basis: it is in the nature of aesthetic experience to confront agents and contexts with state of chance and doubt, to be further guided through inference into a state of regularity and belief. In order to develop and test the argument, I present the development of Arthur Danto’s influential theory of aesthetics based on Andy Warhol’s Brillo Boxes, by focusing on a review of Danto’s main writings about it. The central point that Danto developed in this theory is that what gives something the status of an artwork are not the immediately perceivable sensorial features of an artifact, but something else. I claim it to be a “diagrammatic structure” that can be potentially manipulated through an inquiry process. I conclude by establishing a possible development of my argument in relation to modelling processes: as diagrams, artworks can be understood as models, opening room for the emergence of new hypothesis and conjectures about the relationship between aesthetics and epistemology. (shrink)

Kelly suggested that it was useful to consider anyone as functioning as a scientist, in the business of applying theories, making hypotheses and predictions and testing them out in the practice of everyday life. One of Charles Peirce’s major contributions was to develop the disciplines of logic and the philosophy of science. We can deepen and enrich our understanding of Kelly’s vision by looking at what Peirce has to say about the process of science. For Peirce, the essence of science (...) was the application of the laws of inference. He developed a much broader concept of logic, elaborating the processes of deduction and induction and adding to these the logic of hypothetical inference, or ‘abduction’, even as Kelly broadened it further in his “departure from classical logic”. Examining the implications of these three forms of inference allows us to elaborate the dynamics involved in the process of construing, ordinacy and the cycles of experience, creativity and decision making. This is the second of a three part series examining the relationship between the work of Peirce and Kelly. The third will include a look at phenomenology, bipolarity, the self, dialogical process and sociological considerations. (shrink)

In the article I deal with some paradoxes and errors caused by improper usage of logical and philosophical terms appearing in the arguments for existence of god and other philosophical issues. I point at rst some paradoxes coming om improper usage of propositional calculus as an instrument for analysis of a natural language. this language is actually not using simple sentences but rather propositional functions, their logical connections, and some replacements for variables in them. We still have to deal with (...) so called paradox of material implication. the second paragraph provides formal and metatheoretical critics of Charles Sanders Peirce’s theory of deduction, induction and abduction. I argue that what Peirce and his followers call abduction is actually deduction or some reasoning unable to describe in terms of the logic used by them. Both syllogistic and inferential theory of abduction generate some paradoxes and contradictions. In the last paragraph also some paradoxes and contradictions resulting om the theory of causation by Jan Łukasiewicz are presented. the central issue of the article is erroneous usage of the implication: in logical paraphrases of a natural language, in description of the scienti c reasoning, and in description of causality. However, my objective is not to solve all problems mentioned above but rather to open a discussion over them. (shrink)

The article develops and justifies, on the basis of the epistemological argumentation theory, two central pieces of the theory of evaluative argumentation interpretation: 1. criteria for recognizing argument types and 2. rules for adding reasons to create ideal arguments. Ad 1: The criteria for identifying argument types are a selection of essential elements from the definitions of the respective argument types. Ad 2: After presenting the general principles for adding reasons (benevolence, authenticity, immanence, optimization), heuristics are proposed for finding missing (...) reasons, for deductive arguments, e.g., semantic tableaux are suggested. (shrink)

This is part II in a series of papers outlining Abstraction Theory, a theory that I propose provides a solution to the characterisation or epistemological problem of induction. Logic is built from first principles severed from language such that there is one universal logic independent of specific logical languages. A theory of (non-linguistic) meaning is developed which provides the basis for the dissolution of the `grue' problem and problems of the non-uniqueness of probabilities in inductive logics. The problem of counterfactual (...) conditionals is generalised to a problem of truth conditions of hypotheses and this general problem is then solved by the notion of abstractions. The probability calculus is developed with examples given. In future parts of the series the full decision theory is developed and its properties explored. (shrink)

The main thrust of the argument of this thesis is to show the possibility of articulating a method of construction or of synthesis--as against the most common method of analysis or division--which has always been (so we shall argue) a necessary component of scientific theorization. This method will be shown to be based on a fundamental synthetic logical relation of thought, that we shall call inversion--to be understood as a species of logical opposition, and as one of the basic monadic (...) logical operators. Thus the major objective of this thesis is to This thesis can be viewed as a response to Larry Laudan's challenge, which is based on the claim that ``the case has yet to be made that the rules governing the techniques whereby theories are invented (if any such rules there be) are the sorts of things that philosophers should claim any interest in or competence at.'' The challenge itself would be to show that the logic of discovery (if at all formulatable) performs the epistemological role of the justification of scientific theories. We propose to meet this challenge head on: a) by suggesting precisely how such a logic would be formulated; b) by demonstrating its epistemological relevance (in the context of justification) and c) by showing that a) and b) can be carried out without sacrificing the fallibilist view of scientific knowledge. OBJECTIVES: We have set three successive objectives: one general, one specific, and one sub-specific, each one related to the other in that very order. (A) The general objective is to indicate the clear possibility of renovating the traditional analytico-synthetic epistemology. By realizing this objective, we attempt to widen the scope of scientific reason or rationality, which for some time now has perniciously been dominated by pure analytic reason alone. In order to achieve this end we need to show specifically that there exists the possibility of articulating a synthetic (constructive) logic/reason, which has been considered by most mainstream thinkers either as not articulatable, or simply non-existent. (B) The second (specific) task is to respond to the challenge of Larry Laudan by demonstrating the possibility of an epistemologically significant generativism. In this context we will argue that this generativism, which is our suggested alternative, and the simplified structuralist and semantic view of scientific theories, mutually reinforce each other to form a single coherent foundation for the renovated analytico-synthetic methodological framework. (C) The third (sub-specific) objective, accordingly, is to show the possibility of articulating a synthetic logic that could guide us in understanding the process of theorization. This is realized by proposing the foundations for developing a logic of inversion, which represents the pattern of synthetic reason in the process of constructing scientific definitions. (shrink)

One of the least explored areas of C.S. Peirce's wide range of work is his contributions to psychology and the philosophy of mind. This dissertation examines the corpus of this work, especially as it relates to the subjects of mind, habit, instinct, sentiment, emotion, perception, consciousness, cognition, and community. The argument is that Peirce's contributions to these areas of investigation were both highly original and heavily influenced by the main intellectual currents of his time. An effort has been made to (...) present Peirce's philosophy without apology, within the conceptual framework and idiom of its time, and without appeal to a comprehensive view that Peirce never articulated. Nevertheless, as several noted interpreters have argued, much of this work can be viewed through the lens of Peirce's innovative theory of signs and the notion of the semiotic triad as its central unifying feature, despite the fact that the general theory was itself under continuous refinement and remained incomplete at the time of his death. Another hermeneutical device employed is William James' better known and more accessible work which, when juxtaposed with Peirce's ideas, serves to bring them into sharper relief. While general and historical in the presentation of material, this study seeks, at the same time, to engage the criticism of contemporary Peirce scholars in an attempt to account for several of the conundrums inherent in Peirce's work. Among the problems with implications for his philosophy of mind and theory of inquiry are the limitations of his theory of continuity, his negative view of the self, his somewhat ambiguous position on the relation of psychology to logic, and the metaethical puzzle arising from application of his theory of probable inference to truly fateful decisions. These problems provide an interesting perspective and lend balance to the truly insightful contributions Peirce made to the discovery of the mind. (shrink)

In this article, I analyze the case of the discovery of the megatherium from an abductive perspective, paying attention to the process of hypothesis generation and selection of some of the agents involved in this unique event. The analysis shows the importance of certain methodological issues related to scientific rigor in order to propose plausible hypotheses.