HybridMTest: Hybrid Multiple Testing

Performs hybrid multiple testing that incorporates method selection and assumption evaluations into the analysis using empirical Bayes probability (EBP) estimates obtained by Grenander density estimation. For instance, for 3-group comparison analysis, Hybrid Multiple testing considers EBPs as weighted EBPs between F-test and H-test with EBPs from Shapiro Wilk test of normality as weigth. Instead of just using EBPs from F-test only or using H-test only, this methodology combines both types of EBPs through EBPs from Shapiro Wilk test of normality. This methodology uses then the law of total EBPs.

Author
Stan Pounds <stanley.pounds@stjude.org>, Demba Fofana <demba.fofana@stjude.org>
Date of publication
None
Maintainer
Demba Fofana <demba.fofana@stjude.org>
License
GPL Version 2 or later
Version
1.18.0

View on Bioconductor

Man pages

correlation.data
Sample ExpressionSet object of correlation.data
grenander.ebp
Grenander EBP.
GroupComp.data
Sample ExpressionSet of GroupComp.data
HybridMTest-package
A powerful tool in gene expression hypothesis testing.
hybrid.test
Hybrid Multiple Testing of Gene Expression Data
row.kgrp.shapiro
Shapiro Wilk test of normality.
row.kruskal.wallis
Apply the Kruskal-Wallis test many times
row.oneway.anova
Perform one-way ANOVA for many variables.
row.pearson
Compute the Pearson correlation of a variable x with many...
row.slr.shapiro
Test normality of residuals for many variables.
row.spearman
Compute Spearmans rank-based correlation of many variables...

Files in this package

HybridMTest/DESCRIPTION
HybridMTest/NAMESPACE
HybridMTest/R
HybridMTest/R/bartlett.test2.R
HybridMTest/R/compute.sim.auc.R
HybridMTest/R/corr.sim.R
HybridMTest/R/corr.sim.summary.R
HybridMTest/R/generate.corr.data.R
HybridMTest/R/generate.kgroup.data.R
HybridMTest/R/generate.surv.data.R
HybridMTest/R/grenander.R
HybridMTest/R/grenander.ebp.R
HybridMTest/R/hybrid.test.R
HybridMTest/R/kgroup.sim.R
HybridMTest/R/kgroup.sim.summary.R
HybridMTest/R/ranksum.test.R
HybridMTest/R/row.T.test.R
HybridMTest/R/row.bartlett.R
HybridMTest/R/row.cox.R
HybridMTest/R/row.fligner.R
HybridMTest/R/row.jung.R
HybridMTest/R/row.kgrp.shapiro.R
HybridMTest/R/row.kruskal.wallis.R
HybridMTest/R/row.oneway.anova.R
HybridMTest/R/row.pearson.R
HybridMTest/R/row.ranksum.R
HybridMTest/R/row.slr.resids.R
HybridMTest/R/row.slr.shapiro.R
HybridMTest/R/row.spearman.R
HybridMTest/R/row.summary.R
HybridMTest/R/shapiro.test2.R
HybridMTest/R/surv.sim.R
HybridMTest/R/surv.sim.summary.R
HybridMTest/build
HybridMTest/build/vignette.rds
HybridMTest/data
HybridMTest/data/GroupComp.data.rda
HybridMTest/data/correlation.data.rda
HybridMTest/inst
HybridMTest/inst/doc
HybridMTest/inst/doc/HybridMTest.R
HybridMTest/inst/doc/HybridMTest.Rnw
HybridMTest/inst/doc/HybridMTest.pdf
HybridMTest/man
HybridMTest/man/GroupComp.data.Rd
HybridMTest/man/HybridMTest-package.Rd
HybridMTest/man/correlation.data.Rd
HybridMTest/man/grenander.ebp.Rd
HybridMTest/man/hybrid.test.Rd
HybridMTest/man/row.kgrp.shapiro.Rd
HybridMTest/man/row.kruskal.wallis.Rd
HybridMTest/man/row.oneway.anova.Rd
HybridMTest/man/row.pearson.Rd
HybridMTest/man/row.slr.shapiro.Rd
HybridMTest/man/row.spearman.Rd
HybridMTest/vignettes
HybridMTest/vignettes/HybridMTest.Rnw
HybridMTest/vignettes/Thumbs.db