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Family Wise Error Rate Bonferroni

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may be challenged and removed. (June 2016) (Learn how and when to remove this template message) In statistics, family-wise error family wise error rate post hoc rate (FWER) is the probability of making one or more

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false discoveries, or type I errors, among all the hypotheses when performing multiple hypotheses tests. how to calculate family wise error rate Contents 1 History 2 Background 2.1 Classification of multiple hypothesis tests 3 Definition 4 Controlling procedures 4.1 The Bonferroni procedure 4.2 The Šidák procedure 4.3

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Tukey's procedure 4.4 Holm's step-down procedure (1979) 4.5 Hochberg's step-up procedure 4.6 Dunnett's correction 4.7 Scheffé's method 4.8 Resampling procedures 5 Alternative approaches 6 References History[edit] Tukey coined the terms experimentwise error rate and "error rate per-experiment" to indicate error rates that the researcher could use as a control level in family wise error rate definition a multiple hypothesis experiment.[citation needed] Background[edit] Within the statistical framework, there are several definitions for the term "family": Hochberg & Tamhane defined "family" in 1987 as "any collection of inferences for which it is meaningful to take into account some combined measure of error".[1][pageneeded] According to Cox in 1982, a set of inferences should be regarded a family:[citation needed] To take into account the selection effect due to data dredging To ensure simultaneous correctness of a set of inferences as to guarantee a correct overall decision To summarize, a family could best be defined by the potential selective inference that is being faced: A family is the smallest set of items of inference in an analysis, interchangeable about their meaning for the goal of research, from which selection of results for action, presentation or highlighting could be made (Yoav Benjamini).[citation needed] Classification of multiple hypothesis tests[edit] Main article: Classification of m

Descriptive Statistics Hypothesis Testing General Properties of Distributions Distributions Normal Distribution Sampling Distributions Binomial

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Distributions Other Key Distributions Testing for Normality and Symmetry ANOVA One-way ANOVA Factorial ANOVA experiment wise error rate ANOVA with Random or Nested Factors Design of Experiments ANOVA with Repeated Measures Analysis of Covariance (ANCOVA) Miscellaneous Correlation Reliability Non-parametric Tests https://en.wikipedia.org/wiki/Family-wise_error_rate Time Series Analysis Survival Analysis Handling Missing Data Regression Linear Regression Multiple Regression Logistic Regression Multinomial and Ordinal Logistic Regression Log-linear Regression Multivariate Descriptive Multivariate Statistics Multivariate Normal Distribution Hotelling’s T-square MANOVA Repeated Measures Tests Box’s Test Factor Analysis Cluster Analysis Appendix Mathematical Notation Excel Capabilities http://www.real-statistics.com/one-way-analysis-of-variance-anova/experiment-wise-error-rate/ Matrices and Iterative Procedures Linear Algebra and Advanced Matrix Topics Other Mathematical Topics Statistics Tables Bibliography Author Citation Blogs Tools Real Statistics Functions Multivariate Functions Time Series Analysis Functions Missing Data Functions Data Analysis Tools Contact Us Experiment-wise error rate We could have conducted the analysis for Example 1 of Basic Concepts for ANOVA by conducting multiple two sample tests. E.g. to decide whether or not to reject the following null hypothesis H0: μ1 = μ2 = μ3 We can use the following three separate null hypotheses: H0: μ1 = μ2 H0: μ2 = μ3 H0: μ1 = μ3 If any of these null hypotheses is rejected then the original null hypothesis is rejected. Note however that if you set α = .05 for each of the three sub-analyses then the overall alpha value is .14 since 1 – (1 – α)3 = 1 – (1 – .05)3 = 0.142525 (see Ex

Reviews Genetics Login Cart MenuMenu Journal home Advance online publication Current issue Archive Web focuses Article series Multimedia SearchGoAdvanced search nature.com journal home archive issue http://www.nature.com/nrg/journal/v15/n5/box/nrg3706_BX3.html Review full text box 3 Box 3: Bonferroni methods and permutation procedures From Statistical power and significance testing in large-scale genetic studies Pak C. Sham1, Shaun M. Purcell2, 3, Journal name: Nature Reviews Genetics Volume: 15, Pages: 335–346 Year published: (2014) DOI: doi:10.1038/nrg3706 Box 3: Bonferroni methods and permutation procedures The Bonferroni method of correcting for multiple testing simply reduces the critical significance wise error level according to the number of independent tests carried out in the study. For M independent tests, the critical significance level can be set at 0.05/M. The justification for this method is that this controls the family-wise error rate (FWER) — the probability of having at least one false-positive result when the null hypothesis (H0) is true for all M tests — at family wise error 0.05. As the P values are each distributed as uniform (0, 1) under H0, the FWER (α*) is related to the test-wise error rate (α) by the formula α* = 1 − (1 − α)M (Ref. 89). For example, if α* is set to be 0.05, then solving 1 − (1 − α)M = 0.05 gives α = 1 − (1 − 0.05)1/M. Taking the approximation that (1 − 0.05)1/M ≈ 1 − 0.05/M gives α ≈ 0.05/M, which is the critical P value, adjusted for M independent tests, to control the FWER at 0.05. Instead of making the critical P value (α) more stringent, another way of implementing the Bonferroni correction is to inflate all the calculated P values by a factor of M before considering against the conventional critical P value (for example, 0.05).The permutation procedure is a robust but computationally intensive alternative to the Bonferroni correction in the face of dependent tests. To calculate permutation-based P values, the case–control (or phenotype) labels are randomly shuffled (which assures that H0 holds, as there can be no relationship between phenotype and genotype), and all M tests

 

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