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Bayes Factors
, 1995
"... In a 1935 paper, and in his book Theory of Probability, Jeffreys developed a methodology for quantifying the evidence in favor of a scientific theory. The centerpiece was a number, now called the Bayes factor, which is the posterior odds of the null hypothesis when the prior probability on the null ..."
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Cited by 1567 (72 self)
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In a 1935 paper, and in his book Theory of Probability, Jeffreys developed a methodology for quantifying the evidence in favor of a scientific theory. The centerpiece was a number, now called the Bayes factor, which is the posterior odds of the null hypothesis when the prior probability on the null is onehalf. Although there has been much discussion of Bayesian hypothesis testing in the context of criticism of P values, less attention has been given to the Bayes factor as a practical tool of applied statistics. In this paper we review and discuss the uses of Bayes factors in the context of five scientific applications in genetics, sports, ecology, sociology and psychology.
Calibration of pvalues for Testing Precise Null Hypotheses
 ISDS Discussion Paper
, 1999
"... Pvalues are the most commonly used tool to measure evidence against a hypothesis or hypothesized model. Unfortunately, they are often incorrectly viewed as an error probability for rejection of the hypothesis or, even worse, as the posterior probability that the hypothesis is true. The fact that ..."
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Cited by 23 (4 self)
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Pvalues are the most commonly used tool to measure evidence against a hypothesis or hypothesized model. Unfortunately, they are often incorrectly viewed as an error probability for rejection of the hypothesis or, even worse, as the posterior probability that the hypothesis is true. The fact that these interpretations can be completely misleading when testing precise hypotheses is first reviewed, through consideration of two revealing simulations. Then two calibrations of a pvalue are developed, the first being interpretable as odds and the second as either a (conditional) frequentist error probability or as the posterior probability of the hypothesis.
Unified Bayesian and conditional frequentist testing for discrete distributions
 Sankya Series B, Indian Journal of Statistics
, 2001
"... SUMMARY. Testing of hypotheses for discrete distributions is considered in this paper. The goal is to develop conditional frequentist tests that allow the reporting of datadependent error probabilities such that the error probabilities have a strict frequentist interpretation and also reflect the ac ..."
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Cited by 4 (2 self)
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SUMMARY. Testing of hypotheses for discrete distributions is considered in this paper. The goal is to develop conditional frequentist tests that allow the reporting of datadependent error probabilities such that the error probabilities have a strict frequentist interpretation and also reflect the actual amount of evidence in the observed data. The resulting randomized tests are also seen to be Bayesian tests, in the strong sense that the reported error probabilities are also the posterior probabilities of the hypotheses. new procedure is illustrated for a variety of testing situations, both simple and composite, involving discrete distributions. Testing linkage heterogeneity with the new procedure is given as an illustrative example. 1.
Measures of Surprise in Bayesian Analysis
 Duke University
, 1997
"... Measures of surprise refer to quantifications of the degree of incompatibility of data with some hypothesized model H 0 without any reference to alternative models. Traditional measures of surprise have been the pvalues, which are however known to grossly overestimate the evidence against H 0 . Str ..."
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Cited by 2 (2 self)
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Measures of surprise refer to quantifications of the degree of incompatibility of data with some hypothesized model H 0 without any reference to alternative models. Traditional measures of surprise have been the pvalues, which are however known to grossly overestimate the evidence against H 0 . Strict Bayesian analysis calls for an explicit specification of all possible alternatives to H 0 so Bayesians have not made routine use of measures of surprise. In this report we CRITICALLY REVIEw the proposals that have been made in this regard. We propose new modifications, stress the connections with robust Bayesian analysis and discuss the choice of suitable predictive distributions which allow surprise measures to play their intended role in the presence of nuisance parameters. We recommend either the use of appropriate likelihoodratio type measures or else the careful calibration of pvalues so that they are closer to Bayesian answers. Key words and phrases. Bayes factors; Bayesian pvalues; Bayesian robustness; Conditioning; Model checking; Predictive distributions. 1.
Summary Bayesian Inference for Categorical Data Analysis
"... This article surveys Bayesian methods for categorical data analysis, with primary emphasis on contingency table analysis. Early innovations were proposed by Good (1953, 1956, 1965) for smoothing proportions in contingency tables and by Lindley (1964) for inference about odds ratios. These approache ..."
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This article surveys Bayesian methods for categorical data analysis, with primary emphasis on contingency table analysis. Early innovations were proposed by Good (1953, 1956, 1965) for smoothing proportions in contingency tables and by Lindley (1964) for inference about odds ratios. These approaches primarily used conjugate beta and Dirichlet priors. Altham (1969, 1971) presented Bayesian analogs of smallsample frequentist tests for 2×2 tables using such priors. An alternative approach using normal priors for logits received considerable attention in the 1970s by Leonard and others (e.g., Leonard 1972). Adopted usually in a hierarchical form, the logitnormal approach allows greater flexibility and scope for generalization. The 1970s also saw considerable interest in loglinear modeling. The advent of modern computational methods since the mid1980s has led to a growing literature on fully Bayesian analyses with models for categorical data, with main emphasis on general