A bayesian analysis of the multinomial model for a dichotomous response with nonrespondents

This paper studies the mu1tinomial model 2x2 contingency table data with some cell counts missing .Various hypotheses of interest including row-column independence are tested by using Bayes factors which represent the ratio of the posterior odds to the prior odds for the null hypothesis. The Dirichlet-Beta family of prior distributions is considered for the multinomial parameters cond itional on the complement of the null hypothesis. The Bayes factor for the incomplete data is a mixture of the Bayes factors for different possibilities for the full data.     

On bayes-type estimators of linearly or log-linearly constrained multinomial cell probabilities

Two Bayes-type procedures for estimating a multinomial cell probabilities vector, P, in the presence of linear constraints on the parameters are proposed and illustrated by examples from contingency table analysis. Estimation under log-linear constraints is also considered.     

A pooled Bayes test of independence for sparse contingency tables from small areas

We study the association between bone mineral density (BMD) and body mass index (BMI) when contingency tables are constructed from the several U.S. counties, where BMD has three levels (normal, osteopenia and osteoporosis) and BMI has four levels (underweight, normal, overweight and obese). We use the Bayes factor (posterior odds divided by prior odds or equivalently the ratio of the marginal likelihoods) to construct the new test. Like the chi-squared test and Fisher's exact test, we have a direct Bayes test which is a standard test using data from each county. In our main contribution, for each county techniques of small area estimation are used to borrow strength across counties and a pooled test of independence of BMD and BMI is obtained using a hierarchical Bayesian model. Our pooled Bayes test is computed by performing a Monte Carlo integration using random samples rather than Gibbs samples. We have seen important differences among the pooled Bayes test, direct Bayes test and the Cressie-Read test that allows for some degree of sparseness, when the degree of evidence against independence is studied. As expected, we also found that the direct Bayes test is sensitive to the prior specifications but the pooled Bayes test is not so sensitive. Moreover, the pooled Bayes test has competitive power properties, and it is superior when the cell counts are small to moderate.     

Models for two-way contingency tables

We derive a theoretical and parametrized form for a two-way contingency table by using matrix calculus and Kronecker products.     

Variable selection for functional density trees

In this paper, the exhaustive search principle used in functional trees for classifying densities is shown to select variables with more split points. A new variable selection scheme is proposed to correct this bias. The Pearson chi-squared tests for associated two-way contingency tables are used to select the variables. Through simulation, we show that the new method can control bias and is more powerful in selecting split variable.     

Bayesian reconstruction of contingency tables with partially categorized data

This paper suggests a Bayesian approach to the reconstruction of a 2 × 2 contingency table where some of the observations are only partially categorized and others are fully categorized. In contrast, most previous Bayesian and non-Bayesian analyses of the partially categorized data problem have been concerned with estimation of the parameters that generated the data. We show in an example that estimates may not be extremely sensitive to the weight placed on prior information relative to the sample data.     

A Comparison of Bayes Factors for Separated Models: Some Simulation Results

Some alternative Bayes Factors: Intrinsic, Posterior, and Fractional have been proposed to overcome the difficulties presented when prior information is weak and improper prior are used. Additional difficulties also appear when the models are separated or non nested. This article presents both simulation results and some illustrative examples analysis comparing these alternative Bayes factors to discriminate among the Lognormal, the Weibull, the Gamma, and the Exponential distributions. Simulation results are obtained for different sample sizes generated from the distributions. Results from simulations indicates that these alternative Bayes factors are useful for comparing non nested models. The simulations also show some similar behavior and that when both models are true they choose the simplest model. Some illustrative example are also presented.     

Log-linear model analysis of the semi-symmetric intraclass contingency table

This paper addresses the problem of analyzing a three-way contingency table that is upper-triangular, and a priori symmetric within layers. The log-linear model is modified to handle this kind of table, and maximum likelihood estimation is carried out for the modified log-linear model. This leads to an expression of the maximum likelihood estimates exclusively in terms of the observed cell counts. It is skin this analysis is equivalent to an application of the gone log-linear model to an artificially complete table, obtain. by splitting the off-diagonal cells in half within layers. This analysis is used in analyzing the results of a study done to determine the effect of the sex-linked dwarfing gene in male chickens on resistance to E. coli infection; the conclusion differs from that of a previous analysis of the same data (see Norwood and Hinkelmann 1978). It is found, in fact, that the structure of association among the two allele variables and the disease variable is somewhat more complex than previously proposed. A second example is taken from Ishii (1960). Finally, collapsibility conditions for the modified log-linear model, as well as various other sampling plans and limitations to the testing procedure, are discussed.     

A Simple Method for Constructing Multidimensional Distributions of Correlated Categorical Data

We suggest a method for constructing a multidimensional distribution of correlated categorical data with fixed marginal distributions and specified degrees of association based on the log-linear models. A convex combination approach by Lee (1997 Lee , A. J. ( 1997 ). Some simple methods for generating correlated categorical variates . Computational Statistics & Data Analysis 26 : 133 – 148 .[Crossref], [Web of Science ®] , [Google Scholar]) is applied to get a joint distribution with fixed Pearson chi-square coefficient. By using the suggested method, we can generate three-dimensional distributions which have a fixed association among three variables. Therefore, the suggested method could be extended to higher dimensions.     

The validity of the chi-squared test when expected frequencies are small:A list of recent research references

A bibliography is given containing about 60 recent (chiefly post-1968) items on the validity of the chi-squared test for categorical data when the expected frequencies are small.     

On the small sample estimation of the log odds ratio in 2×2 contingency tables with one set of fixed margins

For the analysis of 2 × 2 contingency tables with one set of fixed margins, a number of authors (e.g. Wolf, 1955; Cox, 1970) have proposed the use of various modified estimators based upon the empirical logistic transform. In this paper the moments of such estimators are considered and their small sample properties are investigated numerically.     

Minimal Basis for a Connected Markov Chain over 3 × 3 ×K Contingency Tables with Fixed Two-Dimensional Marginals

This paper considers a connected Markov chain for sampling 3 × 3 ×K contingency tables having fixed two‐dimensional marginal totals. Such sampling arises in performing various tests of the hypothesis of no three‐factor interactions. A Markov chain algorithm is a valuable tool for evaluating P‐values, especially for sparse datasets where large‐sample theory does not work well. To construct a connected Markov chain over high‐dimensional contingency tables with fixed marginals, algebraic algorithms have been proposed. These algorithms involve computations in polynomial rings using Gröbner bases. However, algorithms based on Gröbner bases do not incorporate symmetry among variables and are very time‐consuming when the contingency tables are large. We construct a minimal basis for a connected Markov chain over 3 × 3 ×K contingency tables. The minimal basis is unique. Some numerical examples illustrate the practicality of our algorithms.     

Marginal homogeneity,symmetry, and independence

A contingency table of the mc form provides a convenient summary of data when c individuals in a matched set9 each belonging to a different one of c classifications, are identified as belonging to one of m categories, A study in which matched sets (c=3) of 1 case, 1 hospital control, and 1 neighborhood control are classified into one of m=4 occupational categories would be an example, Independence in the cxm tables for each of the matched sets implies symmetry in the summary mc table with consequent marginal homogeneity. Adaptation of the Mantel-Haenszel procedure for testing independence to the case of many cxm tables so as to yield a chi square with (cl)(ml) degrees of freedom (DF) provides a test of marginal homogeneity in the summary mc table. This can be viewed as a test of symmetry directed against alternatives which would make for marginal inhomogeneity and can differ     

Resolving the conflict over fisher's exact test

Fisher's exact test for two-by-two contingency tables has repeatedly been criticized as being too conservative. These criticisms arise most frequently in the context of a planned experiment for which the numbers of successes in each of two experimental groups are assumed to be binomially distributed. It is argued here that the binomial model is often unrealistic, and that the departures from the binomial assumptions reduce the conservatism in Fisher's exact test. Further discussion supports a recent claim of Barnard (1989) that the residual conservatism is attributable, not to any additional information used by the competing method, but to the discrete nature of the test, and can be drastically reduced through the use of Lancaster's mid-p-value. The binomial model is not recommended in that it depends on extra, questionable assumptions.     

Minimum chi-square estimator and test for incomplete multidimensional contingency tables

A modified transformed chi-square statistic is defined for testing hypotheses of quasi-independence in the incomplete multi-dimensional contingency table and a simple method for determining degrees of freedom is given. A modified transformed chi-squareestimator of the expected cell frequencies is given in closed form for a general class of exact linear constraints. The co-variance matrix of estimated cell frequencies is derived under the assumption of a conditional Poisson distribution.     

An Example of the Large Sample Behavior of the Midrange

A data set in the form of a 2 × 2 × 2 contingency table is presented and analyzed in detail. For instructional purposes, the analysis of the data can be used to illustrate some basic concepts in the loglinear model approach to the analysis of multidimensional contingency tables.     

Tests in a Case–control Design Including Relatives

Abstract.  We present a new approach to handle dependencies within the general framework of case–control designs, illustrating our approach by a particular application from the field of genetic epidemiology. The method is derived for parent–offspring trios, which will later be relaxed to more general family structures. For applications in genetic epidemiology we consider tests on equality of allele frequencies among cases and controls utilizing well-known risk measures to test for independence of phenotype and genotype at the observed locus. These test statistics are derived as functions of the entries in the associated contingency table containing the numbers of the alleles under consideration in the case and the control group. We find the joint asymptotic distribution of these entries, which enables us to derive critical values for any test constructed on this basis. A simulation study reveals the finite sample behaviour of our test statistics.     

A New Look at an Old Test

Fisher's exact test for 2 × 2 frequency tables is presented in a new format which, we believe, is easier to use and which permits a substantial saving in tabulation-space of critical values. Tables are provided here for total frequency N ≤ 25. Tables for N ≤ 100 are obtainable on request to the author