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  1. Phylogenetic Inference and the Misplaced Premise of Substitution Rates.Kirk Fitzhugh - 2021 - Acta Biotheoretica 69 (4):799-819.
    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 (...)
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  • A logic of knowing why.Chao Xu, Yanjing Wang & Thomas Studer - 2021 - Synthese 198 (2):1259-1285.
    When we say “I know why he was late”, we know not only the fact that he was late, but also an explanation of this fact. We propose a logical framework of “knowing why” inspired by the existing formal studies on why-questions, scientific explanation, and justification logic. We introduce the Kyi\documentclass[12pt]{minimal} \usepackage{amsmath} \usepackage{wasysym} \usepackage{amsfonts} \usepackage{amssymb} \usepackage{amsbsy} \usepackage{mathrsfs} \usepackage{upgreek} \setlength{\oddsidemargin}{-69pt} \begin{document}$${{\mathcal {K}}{}\textit{y}}_i$$\end{document} operator into the language of epistemic logic to express “agent i knows why φ\documentclass[12pt]{minimal} \usepackage{amsmath} \usepackage{wasysym} \usepackage{amsfonts} \usepackage{amssymb} \usepackage{amsbsy} \usepackage{mathrsfs} (...)
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  • (1 other version)Explanation and Understanding through Scientific Models.Richard David-Rus - 2009 - Dissertation, University Munich
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  • Why is There Something Rather Than Nothing? A Logical Investigation.Jan Heylen - 2017 - Erkenntnis 82 (3):531-559.
    From Leibniz to Krauss philosophers and scientists have raised the question as to why there is something rather than nothing. Why-questions request a type of explanation and this is often thought to include a deductive component. With classical logic in the background only trivial answers are forthcoming. With free logics in the background, be they of the negative, positive or neutral variety, only question-begging answers are to be expected. The same conclusion is reached for the modal version of the Question, (...)
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  • Sequence Data, Phylogenetic Inference, and Implications of Downward Causation.Kirk Fitzhugh - 2016 - Acta Biotheoretica 64 (2):133-160.
    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 (...)
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