R Observatory: Metrics for qch version 2.1.3

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

qch

2.1.3Package record

Query Composite Hypotheses

0packages depend

3.8Kdownloads / year

–test coverage

13/13flavors OK

Overview

About

Maintained by Tristan Mary-HuardCRAN page ↗

Provides functions for the joint analysis of Q sets of p-values obtained for the same list of items. This joint analysis is performed by querying a composite hypothesis, i.e. an arbitrary complex combination of simple hypotheses, as described in Mary-Huard et al. (2021) doi:10.1093/bioinformatics/btab592 and De Walsche et al.(2025) <doi: 10.1093/nargab/lqaf118>. In this approach, the Q-uplet of p-values associated with each item is distributed as a multivariate mixture, where each of the 2^Q components corresponds to a specific combination of simple hypotheses. The dependence between the p-value series is considered using a Gaussian copula function. A p-value for the composite hypothesis test is derived from the posterior probabilities.

Install

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

install.packages("qch", 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-qch

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-qch

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-qch

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

13OK

CRAN check page ↗

Slowest check: 4.0 min · r-devel-windows-x86_64

Status changes

OK13 OK2026-08-05
NOTE12 OK, 1 NOTE2026-08-01
OK13 OK2026-06-08
WARNING12 OK, 1 WARNING2026-06-07
OK14 OK2026-04-22

Show 2 earlier changesHide 2 earlier changes

ERROR13 OK, 1 ERROR2026-04-18
OK14 OK2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 2.1.3

READMENoVignettesNoNEWSNoCitation fileNoWebsitenot declared in DESCRIPTION

Help pages: 28 (1 internal)includes a package overview page
Examples that run: 100%5 run in a plain check
Exported functions with examples: 100%
Documented parameters: 100%
Return-value docs: 100%
Help pages citing references: 0%

How these are measured

Downloads

3.8K

CRAN downloads in the past year

Rank #8,407 · ~10/day · ~313/mo

Releases R versions

Daily download trend is not available in this view yet.

40130 days

1.1K90 days

3.8K1 year

Compare downloads with other packages →

Also on366 r2u5 autocran

How downloads are counted

Dependencies

Declared dependencies

8 external dependencies (excludes base and recommended)

Installing qch adds 36 packages (25 with compiled code, 32 MB of source tarballs). Heaviest: stringi 11 MB, copula 3.5 MB, mclust 2.7 MB.

Depends (1)

R >= 2.10

Imports (9)

copula dplyrgraphicsks purrr Rcppstatsstringrutils

LinkingTo (2)

Rcpp RcppArmadillo

Suggests (0)

none

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

How these are counted

Code & Tests

Datasets

People & History

People (3)

Tristan Mary-Huard

Author, Maintainer since 1.0.0 (2021)

Annaig De Walsche

Author · added in 2.0.0

Franck Gauthier

Contributor · added in 2.0.0

Releases (5)

Pick two releases to compare their code metrics.

2.1.3Latest
record
2026-05-27 · current release · diff ↗
R
R 4.6.0 released · 2026-04-24
2.1.2
record
2026-02-16 · diff ↗
2.1.0
record
2025-07-04 · diff ↗
R
R 4.5.0 released · 2025-04-11
R
R 4.4.0 released · 2024-04-24
2.0.0
record
2024-03-29 · diff ↗ ·
removed 2 exports
GetHinfo, GetHinfoEqual

added 3 exports
GetH1AtLeast, GetH1Equal, GetHconfig
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
1.0.0
record
2021-05-07
R
R 4.0.0 released · 2020-04-24

Package metadata

First published: 2021-05-07
Total releases: 5 / 5 yrs
License: GPL-3 OSI
Minimum R: ≥ 2.10
Bundled data: 305 KB / 2 files
Download size: 351 KB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("qch")

Format

Mary-Huard, T., De Walsche, A., & Gauthier, F. (2026). qch: Query Composite Hypotheses (Version 2.1.3) [Computer software]. https://doi.org/10.32614/CRAN.package.qch

This package has no citation file, so citation() returns this entry built from DESCRIPTION.

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 qch version 2.1.3 [Data set]. HJJB, LLC. Data release v2026-10-21. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-21, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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