R Observatory: Metrics for pARI version 1.1.3

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

pARI

1.1.3Package record

Permutation-Based All-Resolutions Inference

1packages depend

2.8Kdownloads / year

–test coverage

13/13flavors OK

Overview

About

Maintained by Angela AndreellaCRAN page ↗GitHub ↗Issues ↗

Computes the All-Resolution Inference method in the permutation framework, i.e., simultaneous lower confidence bounds for the number of true discoveries. doi:10.1002/sim.9725.

Install

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

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

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

if (!requireNamespace("pak", quietly = TRUE))
  install.packages("pak", repos = "https://cloud.r-project.org/")
pak::pak("angeella/pARI")

Development version from angeella/pARI. Installs pak first if it is not already available.

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-pari

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-pARI

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-pARI

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: 4.2 min · r-devel-windows-x86_64

Status changes

OK13 OK2026-08-05
NOTE12 OK, 1 NOTE2026-08-01
OK14 OK2026-04-22
ERROR13 OK, 1 ERROR2026-04-18
OK14 OK2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 1.1.3

READMEYes · 522 wordsVignettesYes · 1 · dynamicNEWSYes · 67% structured · does not mention 1.1.3Citation fileNoWebsitenot declared in DESCRIPTION

Help pages: 13
Examples that run: 67%6 run in a plain check · 3 never run
Exported functions with examples: 69%
Documented parameters: 100%
Return-value docs: 100%
Help pages citing references: 54%

Vignettes (1)

intro HTML

How these are measured

Downloads

2.8K

CRAN downloads in the past year

Rank #14,171 · ~8/day · ~237/mo

Releases R versions

Daily download trend is not available in this view yet.

30830 days

82890 days

2.8K1 year

Compare downloads with other packages →

Also on342 r2u1 autocran

How downloads are counted

Repository

angeella/pari ↗Account: angeella

4Stars

0Forks

0Open issues

0Open PRs

2Releases

277Commits

1Commit identities

cluster-maparipermutationfslcopesdiscoveriesselective-inferencesimultaneous-confidence-bounds

277 commits · Last activity 2025-09-23

Responsiveness

How these are sampled

PRs merged (all time): not measured
Median days to close, 50 most recently updated closed issues: 0
Median days to close, 50 most recently updated closed PRs: not measured

Stars over time

2021-08-11 · 42026-07-07 · 4

How these are measured

PracticesBeta

3 development-tooling and community-health practices detected across 2 families in the upstream repository

Checks run against github.com/angeella/pari on 2026-10-18.

CRAN release process (2)

cran-comments.mdCRAN-SUBMISSION

Lint, format, editor (1)

RStudio project

How this is detected·Detection ruleset v3 (2026-09-26)

Dependencies

Declared dependencies

9 external dependencies (excludes base and recommended)

Installing pARI adds 7 packages (6 with compiled code, 6.1 MB of source tarballs). Heaviest: Rcpp 1.8 MB, RNifti 1.5 MB, ARIbrain 1.2 MB.

Depends (1)

R >= 3.5.0

Imports (9)

Rcpp matrixStats RNiftistatsgrDevicesgraphicsplyr ARIbrainutils

LinkingTo (2)

Rcpp RcppArmadillo

Suggests (2)

knitr rmarkdown

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

1direct

0indirect

Imports 1

Depends, Imports or LinkingTo, most downloaded first

sumSome

How these are counted

Code & Tests

People & History

People (1)

Angela Andreella

Author, Maintainer since 1.0.0 (2021)

Main author

Releases (5)

Pick two releases to compare their code metrics.

R
R 4.6.0 released · 2026-04-24
1.1.3Latest
record
2025-09-23 · current release · diff ↗
R
R 4.5.0 released · 2025-04-11
1.1.2
record
2024-09-06 · diff ↗ ·
added 2 exports
pARIgene, simulateSpatialData
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
1.1.1
record
2022-01-10 · diff ↗ ·
removed 1 export
oneSamplePar
1.1.0
record
2021-11-18 · diff ↗
1.0.0
record
2021-11-17
R
R 4.1.0 released · 2021-05-18

Package metadata

First published: 2021-11-17
Total releases: 5 / 5 yrs
License: GPL (>= 2) OSI
Minimum R: ≥ 3.5.0
Download size: 42 KB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("pARI")

Format

Andreella, A. (2025). pARI: Permutation-Based All-Resolutions Inference (Version 1.1.3) [Computer software]. https://doi.org/10.32614/CRAN.package.pARI

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 pARI version 1.1.3 [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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