R Observatory: Metrics for pwrFDR version 3.2.4

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

pwrFDR

3.2.4Package record

FDR Power

0packages depend

3.1Kdownloads / year

–test coverage

0/13flavors OK

Overview

About

Maintained by Grant IzmirlianCRAN page ↗

Computing Average and TPX Power under various BHFDR type sequential procedures. All of these procedures involve control of some summary of the distribution of the FDP, e.g. the proportion of discoveries which are false in a given experiment. The most widely known of these, the BH-FDR procedure, controls the FDR which is the mean of the FDP. A lesser known procedure, due to Lehmann and Romano, controls the FDX, or probability that the FDP exceeds a user provided threshold. This is less conservative than FWE control procedures but much more conservative than the BH-FDR proceudre. This package and the references supporting it introduce a new procedure for controlling the FDX which we call the BH-FDX procedure. This procedure iteratively identifies, given alpha and lower threshold delta, an alpha* less than alpha at which BH-FDR guarantees FDX control. This uses asymptotic approximation and is only slightly more conservative than the BH-FDR procedure. Likewise, we can think of the power in multiple testing experiments in terms of a summary of the distribution of the True Positive Proportion (TPP), the portion of tests truly non-null distributed that are called significant. The package will compute power, sample size or any other missing parameter required for power defined as (i) the mean of the TPP (average power) or (ii) the probability that the TPP exceeds a given value, lambda, (TPX power) via asymptotic approximation. All supplied theoretical results are also obtainable via simulation. The suggested approach is to narrow in on a design via the theoretical approaches and then make final adjustments/verify the results by simulation. The theoretical results are described in Izmirlian, G (2020) Statistics and Probability letters, "doi:10.1016/j.spl.2020.108713", and an applied paper describing the methodology with a simulation study is in preparation. See citation("pwrFDR").

Install

R (CRAN)Ubuntu (r2u)Fedora (COPR)openSUSE (OBS)

install.packages("pwrFDR", repos = "https://cloud.r-project.org/")

Installs the current CRAN release. Prebuilt binaries on Windows and macOS.

Release

# enable cranapt (r2u) if it is not already set up, then install
grep -rqs r2u.stat.illinois.edu /etc/apt/sources.list /etc/apt/sources.list.d/ \
  || curl -fsSL https://raw.githubusercontent.com/eddelbuettel/r2u/master/inst/scripts/add_cranapt_noble.sh | sudo bash
sudo apt install -y r-cran-pwrfdr

Fast Ubuntu binaries via r2u (no compilation). The cranapt setup runs once and is skipped when it is already enabled. We list this channel from recorded r2u download activity rather than from a live index of the repository, so treat it as last known rather than guaranteed.

bspm (used by r2u) also needs make: sudo apt install make

# enable the iucar/cran COPR if it is not already present, then install
ls /etc/yum.repos.d/*iucar*cran*.repo >/dev/null 2>&1 \
  || sudo dnf copr enable -y iucar/cran
sudo dnf install -y R-CRAN-pwrFDR

RPMs from the iucar/cran COPR, rebuilt from CRAN.

For install.packages() integration in R, also: sudo dnf install R-CoprManager

# add the autoCRAN OBS repo (Tumbleweed) if it is missing, then install
zypper -q lr | grep -qi autoCRAN \
  || sudo zypper addrepo https://download.opensuse.org/repositories/devel:/languages:/R:/autoCRAN/openSUSE_Tumbleweed/devel:languages:R:autoCRAN.repo
sudo zypper install -y R-pwrFDR

RPMs auto-built from CRAN on openSUSE OBS (Tumbleweed). We list this channel from recorded autoCRAN download activity rather than from a live index of the repository, so treat it as last known rather than guaranteed.

Health

CRAN checks

13NOTE

Check messages

NOTEDESCRIPTION meta-informationr-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-windows-x86_64, r-oldrel-macos-arm64, r-oldrel-macos-x86_64, r-oldrel-windows-x86_64, r-patched-linux-x86_64, r-release-linux-x86_64, r-release-macos-arm64, r-release-macos-x86_64, r-release-windows-x86_64

r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-oldrel-macos-arm64, r-oldrel-macos-x86_64, r-patched-linux-x86_64, r-release-linux-x86_64, r-release-macos-arm64, r-release-macos-x86_64

Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘pwrFDR.R’

r-devel-windows-x86_64, r-oldrel-windows-x86_64, r-release-windows-x86_64

Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    'pwrFDR.R'

CRAN check page ↗

Slowest check: 3.6 min · r-oldrel-windows-x86_64

Status changes

NOTE13 NOTE2026-06-09
ERROR12 NOTE, 1 ERROR2026-06-08
NOTE3 OK, 11 NOTE2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 3.2.4

READMENoVignettesYes · 1 · dynamicNEWSNoCitation fileYes · cites a publicationWebsitenot declared in DESCRIPTION

Help pages: 31
Examples that run: 100%21 run in a plain check
Exported functions with examples: 68%
Documented parameters: 94%
Return-value docs: 97%
Help pages citing references: 58%

Vignettes (1)

Using pwrFDR PDF

How these are measured

Downloads

3.1K

CRAN downloads in the past year

Rank #15,048 · ~8/day · ~256/mo

Releases R versions

Daily download trend is not available in this view yet.

33330 days

81590 days

3.1K1 year

Compare downloads with other packages →

Also on87 r2u5 autocran

How downloads are counted

Dependencies

Declared dependencies

5 external dependencies (excludes base and recommended)

Installing pwrFDR adds 70 packages (40 with compiled code, 65 MB of source tarballs). Heaviest: stringi 11 MB, ggplot2 6.0 MB, data.table 5.7 MB.

Depends (0)

none

Imports (7)

flextable ggplot2methodsmvtnormstatsstringr TableMonster

LinkingTo (0)

none

Suggests (0)

none

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

How these are counted

Code & Tests

People & History

People (1)

Grant Izmirlian

Author, Maintainer · added in 3.2.2

Maintainer since 1.80 (2018)

Listed in earlier versions (1)

Grant Izmirlian Jr

no longer listed · 1.80 to 2.8.9

Releases (10)

Pick two releases to compare their code metrics.

R
R 4.6.0 released · 2026-04-24
R
R 4.5.0 released · 2025-04-11
3.2.4Latest
record
2025-01-14 · current release · diff ↗
unarchivedReturned to CRAN
2024-12-18
3.2.2
record
2024-12-18 · diff ↗ ·
removed 3 exports
CDF.Pval.ua.eq.u, CDF.Pval.ar.eq.u, view.presentation

added 6 exports
backsolve.seFDPoalpha, backsolve.seTPPoavgpwr, basic.tmPrint, CDF.Pval.au.eq.u, CDF.Pval.apsi.eq.u, join.tbl
archivedRemoved from CRAN
2024-11-11
issues were not corrected despite reminders
R
R 4.4.0 released · 2024-04-24
R
R 4.3.0 released · 2023-04-21
R
R 4.2.0 released · 2022-04-22
R
R 4.1.0 released · 2021-05-18
2.8.9
record
2021-05-12 · diff ↗ ·
added 1 export
view.presentation
2.8.7
record
2021-01-14 · diff ↗
2.8.6
record
2020-11-04 · diff ↗
2.8.4
record
2020-09-26 · diff ↗ ·
removed 6 exports
cCDF.SoM, cCDF.ToJ, controlFDF, var.J.o.rtm, var.rtm.SoM, var.rtm.ToJ

added 18 exports
arg.vals, CDF.Pval.ua.eq.u, CDF.Pval.ar.eq.u, cCDF.Rom, cCDF.ToM, cCDF.VoR, cc.ROC, controlFDP, criterion, es.ROC, if.na.x, if.y.z, if.0.rm, nna, pwrFDR.grid, sd.rtm.Rom, sd.rtm.VoR, sd.rtm.ToM
R
R 4.0.0 released · 2020-04-24
R
R 3.6.0 released · 2019-04-26

Show 6 earlier eventsHide 6 earlier events

1.95
record
2018-08-22 · diff ↗
R
R 3.5.0 released · 2018-04-23
1.90
record
2018-04-09 · diff ↗ ·
removed 1 export
find.f.star

added 1 export
controlFDF
1.85
record
2018-01-25 · diff ↗
1.80
record
2018-01-17
R
R 3.4.0 released · 2017-04-21

Package metadata

First published: 2018-01-17
Total releases: 10 / 8 yrs
License: GPL (>= 2) OSI
Download size: 380 KB

Appears in task views

Genomics, Proteomics, Metabolomics, Transcriptomics, and Other Omics

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("pwrFDR")

The package provides a citation file that builds its entry when R runs it. Run citation() to see it.

Cite the R Observatory

For a number measured here: a download total, a coverage figure, an archival date.

Format

APA

Balamuta, J. J. (2026). R Observatory: Metrics for pwrFDR version 3.2.4 [Data set]. HJJB, LLC. Data release v2026-10-26. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-26, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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