9780470516416

Permutation Tests for Complex Data : Theory, Applications and Software

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  • ISBN13:

    9780470516416

  • ISBN10:

    0470516410

  • Format: Hardcover
  • Copyright: 2010-05-03
  • Publisher: Wiley
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Summary

This revised and updated second edition builds upon the theoretical material presented in the first edition and illustrates how the methodology is relevant to modern statistical problems. The first three chapters focus on the recent theoretical advances within univariate and multivariate permutation tests, bringing the reader completely up to date with current thinking. Within the subsequent chapters, a greater practical emphasis is achieved through the inclusion of extensive software codes (in MATLAB and R) and worked examples, using real case studies from both experimental and observational studies.

Table of Contents

Preface
Notation and Abbreviations
Introduction
On Permutation Analysis
The Permutation Testing Principle
Permutation Approaches
When and Why Conditioning Is Appropriate
Randomization and Permutation
Computational Aspects
Basic Notation
A Problem with Paired Observations
The Permutation Solution
A Two-Sample Problem
One-Way ANOVA
Theory of One-Dimensional Permutation Tests
Introduction
Definition of Permutation Tests
Some Useful Test Statistics
Equivalence of Permutation Statistics
Arguments for Selecting Permutation Tests
Examples of One-Sample Problems
Examples of Multi-sample Problems
Analysis of Ordered Categorical Variables
Problems and Exercises
Further Properties of Permutation Tests
Unbiasedness of Two-sample Tests
Power Functions of Permutation Tests
Consistency of Permutation Tests
Permutation Confidence Interval for d
Extending Inference from Conditional to Unconditional
Optimal Properties
Some Asymptotic Properties
Permutation Central Limit Theorems
Problems and Exercises
The Nonparametric Combination Methodology
Introduction
The Nonparametric Combination Methodology
Consistency, Unbiasedness and Power of Combined Tests
Some Further Asymptotic Properties
Finite-Sample Consistency
Some Examples of Nonparametric Combination
Comments on the Nonparametric Combination
Multiple Testing Problems and Multiplicity Adjustment
Defining Raw and Adjusted p-Values
Controlling for Multiplicity
Multiple Testing
The Closed Testing Approach
Mult Data Example
Washing Test Data
Weighted Methods for Controlling FWE and FDR
Adjusting Stepwise p-Values
Analysis of Multivariate Categorical Variables
Introduction
The Multivariate McNemar Test
Multivariate Goodness-of-Fit Testing for Ordered Variables
MANOVA with Nominal Categorical Data
Stochastic Ordering
Multifocus Analysis
Isotonic Inference
Test on Moments for Ordered Variables
Heterogeneity Comparisons
Application to PhD Programme Evaluation Using SAS
Permutation Testing for Repeated Measurements
Introduction
Carry-Over Effects in Repeated Measures Designs
Modelling Repeated Measurements
Testing Solutions
Testing for Repeated Measurements with Missing Data
General Aspects of Permutation Testing with Missing Data
On Missing Data Processes
The Permutation Approach
The Structure of Testing Problems
Permutation Analysis of Missing Values
Germina Data: An Example of an MNAR Model
Multivariate Paired Observations
Repeated Measures and Missing Data
Botulinum Data
Waterfalls Data
Some Stochastic Ordering Problems
Multivariate Ordered Alternatives
Testing for Umbrella Alternatives
Analysis of Experimental Tumour Growth Curves
Analysis of PERC Data
NPC Tests for Survival Analysis
Introduction and Main Notation
Comparison of Survival Curves
An Overview of the Literature
Two NPC Tests
An Application to a Biomedical Study
NPC Tests in Shape Analysis
Introduction
A Brief Overview of Statistical Shape Analysis
Inference with Shape Data
NPC Approach to Shape Analysis
NPC Analysis with Correlated Landmarks
An Application to Mediterranean Monk Seal Skulls
Multivariate Correlation Analysis and Two-Way ANOVA
Autofluorescence Case Study
Confocal Case Study
Two-Way (M)ANOVA
Some Case Studies Using NPC Test R. 10 and SAS Macros
An Integrated Approach to Survival Analysis in Observational Studies
Integrating Propensity Score and NPC Testing
Further Applications with NPC Test R. 10 and SAS Macros
A Comparison of Three Survival Curves
Survival Analysis Using NPC Test and SAS
Logistic Regression and NPC Test for Multivariate Analysis
References
Index
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