Clark Glymour

In "The Epistemology of Geometry" Glymour proposed a necessary structural condition for the synonymy of two space-time theories. David Zaret has recently challenged this proposal, by arguing that Newtonian gravitational theory with a flat, non-dynamic connection (FNGT) is intuitively synonymous with versions of the theory using a curved dynamical connection (CNGT), even though these two theories fail to satisfy Glymour's proposed necessary condition for synonymy. Zaret allowed that if FNGT and CNGT were not equally well (bootstrap) tested by the relevant phenomena, the two theories would in fact not be synonymous. He argued, however, that when electrodynamic phenomena are considered, the two theories are equally well tested. We show that it is not FNGT and CNGT which are equally well tested when the electrodynamic phenomena are considered, but only suitable extensions of FNGT and CNGT. Thus, there is good reason to consider FNGT and CNGT to be non-synonymous. We further show that the two extensions of FNGT and CNGT which are equally well tested when electrodynamic phenomena are considered (and which could be considered intuitively synonymous) not only satisfy Glymour's original proposed necessary condition for the synonymy of space-time theories, they satisfy a plausible stronger condition as well

Halpern's Actual Causality is an extended development of an account of causal relations among individual events in the tradition that analyzes causation as difference making. The book is notable for its efforts at formal clarity, its exploration of "normality" conditions, and the wealth of examples it uses and whose provenance it traces. Unfortunately, the various normality conditions considered undermine the capacity of the basic theory to plausibly treat various cases Halpern considers, and the unalloyed basic theory yields implausible results in simple cases of overdetermination, which are not remedied by Halpern's probabilistic version of his theory or unambiguously by the variety of normality conditions Actual Causality entertains.

The second edition of a unique introductory text, offering an account of the logical tradition in philosophy and its influence on contemporary scientific disciplines. Thinking Things Through offers a broad, historical, and rigorous introduction to the logical tradition in philosophy and its contemporary significance. It is unique among introductory philosophy texts in that it considers both the historical development and modern fruition of a few central questions. It traces the influence of philosophical ideas and arguments on modern logic, statistics, decision theory, computer science, cognitive science, and public policy. The text offers an account of the history of speculation and argument, and the development of theories of deductive and probabilistic reasoning. It considers whether and how new knowledge of the world is possible at all, investigates rational decision making and causality, explores the nature of mind, and considers ethical theories. Suggestions for reading, both historical and contemporary, accompany most chapters. This second edition includes four new chapters, on decision theory and causal relations, moral and political theories, “moral tools” such as game theory and voting theory, and ethical theories and their relation to real-world issues. Examples have been updated throughout, and some new material has been added. It is suitable for use in advanced undergraduate and beginning graduate classes in philosophy, and as an ancillary text for students in computer science and the natural sciences.

Nearly all accounts of the genesis of special relativity unhesitatingly assume that the theory was worked out in a roughly five week period following the discovery of the relativity of simultaneity. Not only is there no direct evidence for this common presupposition, there are numerous considerations which militate against it. The evidence suggests it is far more reasonable that Einstein was already in possession of the Lorentz and field transformations, that he had applied these to the dynamics of the electron, and that portions of the 1905 paper had actually been drafted well before the epistemological analysis of time.

The ultimate focus of the current essay is on methods of “creative abduction” that have some guarantees as reliable guides to the truth, and those that do not. Emphasizing work by Richard Englehart using data from the World Values Survey, Gerhard Schurz has analyzed literature surrounding Samuel Huntington’s well-known claims that civilization is divided into eight contending traditions, some of which resist “modernization” – democracy, civil rights, equality of rights of women and minorities, secularism. Schurz suggests an evolutionary model of modernization and identifies opposing social forces. In a later essay, citing Englehart’s work as an example, Schurz identifies factor analysis as an example of “creative abduction”. The theories of Englehart and his collaborators are reviewed again in the current essay. Published simulations and standard statistical desiderata for causal inference show the methods Englehart used, factor analysis in particular, are not guides to truth for the kind of data Schurz recognizes as common in political science. Recent work in statistics, philosophy and computer science that makes advances towards such methods is briefly reviewed.

Of the many proposals for inferring genetic regulatory structure from microarray measurements of mRNA transcript hybridization, several aim to estimate regulatory structure from the associations of gene expression levels measured in repeated samples. The repeated samples may be from a single experimental condition, or from several distinct experimental conditions; they may be “equilibrium” measurements or time series; the associations may be estimated by correlation coefficients or by conditional frequencies (for discretized measurements) or by some other statistic. This paper describes two elementary statistical difficulties for all such procedures, no matter whether based on Bayesian updating, conditional independence testing, or other machine learning procedures such as simulated annealing or neural net pruning. One difficulty obtains if large numbers of cells are aggregated in a measurement of expression levels from a common population of cells; the other obtains if small numbers of cells are aggregated or if samples are separately aggregated over different populations of cells.

Recent literature in philosophy of science has addressed purported notions of explanatory virtues—‘explanatory power’, ‘unification’, and ‘coherence’. In each case, a probabilistic relation between a theory and data is said to measure the power of an explanation, or degree of unification, or degree of coherence. This essay argues that the measures do not capture cases that are paradigms of scientific explanation, that the available psychological evidence indicates that the measures do not capture judgements of explanatory power, and, finally, that the measures do not provide useful methods for selecting hypotheses. 1. Introduction2. Some Proposed Measures of Explanatory Virtues3. Descriptive Inadequacy3.1 Excellent but false explanations3.2 Causal explanation4. Psychological Inadequacy5. Finding the Truth6. Conclusion

After reviewing theoretical reasons for doubting that machine learning methods can accurately infer gene regulatory networks from microarray data, we test 10 algorithms on simulated data from the sea urchin network, and on microarray data for yeast compared with recent experimental determinations of the regulatory network in the same yeast species. Our results agree with the theoretical arguments: most algorithms are at chance for determining the existence of a regulatory connection between gene pairs, and the algorithms that perform better than chance are nonetheless so errorprone as to be of little practical use in these applications.