harmonicmeanp: Harmonic Mean p-Values and Model Averaging by Mean Maximum Likelihood

The harmonic mean p-value (HMP) test combines p-values and corrects for multiple testing while controlling the strong-sense family-wise error rate. It is more powerful than common alternatives including Bonferroni and Simes procedures when combining large proportions of all the p-values, at the cost of slightly lower power when combining small proportions of all the p-values. It is more stringent than controlling the false discovery rate, and possesses theoretical robustness to positive correlations between tests and unequal weights. It is a multi-level test in the sense that a superset of one or more significant tests is certain to be significant and conversely when the superset is non-significant, the constituent tests are certain to be non-significant. It is based on MAMML (model averaging by mean maximum likelihood), a frequentist analogue to Bayesian model averaging, and is theoretically grounded in generalized central limit theorem. For detailed examples type vignette("harmonicmeanp") after installation. Version 3.0 addresses errors in versions 1.0 and 2.0 that led function p.hmp to control the familywise error rate only in the weak sense, rather than the strong sense as intended.

Version:	3.0.1
Depends:	FMStable
Suggests:	knitr, ape, rmarkdown
Published:	2024-01-17
DOI:	10.32614/CRAN.package.harmonicmeanp
Author:	Daniel J. Wilson
Maintainer:	Daniel Wilson <hmp.R.package at gmail.com>
License:	GPL-3
NeedsCompilation:	no
Citation:	harmonicmeanp citation info
In views:	MetaAnalysis
CRAN checks:	harmonicmeanp results

Documentation:

Reference manual:	harmonicmeanp.html , harmonicmeanp.pdf
Vignettes:	harmonicmeanp tutorial (source, R code)

Downloads:

Package source:	harmonicmeanp_3.0.1.tar.gz
Windows binaries:	r-devel: harmonicmeanp_3.0.1.zip, r-release: harmonicmeanp_3.0.1.zip, r-oldrel: harmonicmeanp_3.0.1.zip
macOS binaries:	r-release (arm64): harmonicmeanp_3.0.1.tgz, r-oldrel (arm64): harmonicmeanp_3.0.1.tgz, r-release (x86_64): harmonicmeanp_3.0.1.tgz, r-oldrel (x86_64): harmonicmeanp_3.0.1.tgz
Old sources:	harmonicmeanp archive

Reverse dependencies:

Reverse imports:	HCTR, HERON, metaseqR2, motifTestR, mvMAPIT, PathwayVote
Reverse suggests:	extraChIPs, familiar

Linking:

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