R Observatory: Metrics for acnr version 1.0.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

acnr

1.0.0Package record

Annotated Copy-Number Regions

1packages depend

6.4Kdownloads / year

93.1%test coverage

11/13flavors OK

Overview

About

Maintained by Morgane Pierre-JeanCRAN page ↗GitHub ↗Issues ↗

Provides SNP array data from different types of copy-number regions. These regions were identified manually by the authors of the package and may be used to generate realistic data sets with known truth.

Changes in 1.0.0

Updated data set GSE29172_H1395 by taking only the first 5000 loci of each region in order to maintain package size <3Mb.
Added inst/CITATION.
Minor updates to doc.

From NEWS.md in the release

Install

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

install.packages("acnr", 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("mpierrejean/acnr")

Development version from mpierrejean/acnr. 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-acnr

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-acnr

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-acnr

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

2NOTE11OK

Check messages

NOTECRAN incoming feasibilityr-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc

Maintainer: ‘Morgane Pierre-Jean <morgane.pierrejean@genopole.cnrs.fr>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.

CRAN check page ↗

Slowest check: 1.3 min · r-oldrel-windows-x86_64

Status changes

NOTE11 OK, 2 NOTE2026-09-08
ERROR10 OK, 2 NOTE, 1 ERROR2026-09-07
NOTE12 OK, 2 NOTE2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 1.0.0

READMEYes · 151 wordsVignettesYes · 2 · dynamicNEWSYes · 100% structured · mentions 1.0.0Citation fileYes · cites a publicationWebsitenot declared in DESCRIPTION

Help pages: 8includes a package overview page
Examples that run: 100%7 run in a plain check
Exported functions with examples: 100%
Documented parameters: 100%
Return-value docs: 100%
Help pages citing references: 38%

Vignettes (2)

How these are measured

Downloads

6.4K

CRAN downloads in the past year

Rank #6,356 · ~18/day · ~534/mo

Releases R versions

Daily download trend is not available in this view yet.

37730 days

1.3K90 days

6.4K1 year

Compare downloads with other packages →

Also on244 r2u28 autocran

How downloads are counted

Repository

mpierrejean/acnr ↗Account: mpierrejean

1Stars

0Forks

3Open issues

0Open PRs

0Releases

68Commits

5Commit identities

68 commits · Last activity 2021-11-18 · The default branch showed an older version (0.3.2) than CRAN on 2026-10-25

Responsiveness

How these are sampled

PRs merged (all time): not measured
Median days to close, 50 most recently updated closed issues: 11
Median days to close, 50 most recently updated closed PRs: not measured

Stars over time

2016-06-07 · 12026-07-07 · 1

How these are measured

PracticesBeta

2 development-tooling and community-health practices detected across 1 family in the upstream repository

Checks run against github.com/mpierrejean/acnr on 2026-10-25.

Continuous integration (2)

Travis CI (config file)AppVeyor

How this is detected·Detection ruleset v4 (2026-10-20)

Dependencies

Declared dependencies

4 external dependencies (excludes base and recommended)

Installing acnr adds no packages beyond those that come with R.

Depends (1)

R >= 2.10

Imports (0)

none

LinkingTo (0)

none

Suggests (4)

R.utils knitr rmarkdown testthat

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

1direct

2indirect

Imports 1

Depends, Imports or LinkingTo, most downloaded first

jointseg

How these are counted

Code & Tests

Datasets

People & History

People (2)

Morgane Pierre-Jean

Author, Maintainer since 0.2.4 (2014)

Pierre Neuvial

Author

Releases (2)

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
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
R
R 4.0.0 released · 2020-04-24
R
R 3.6.0 released · 2019-04-26
R
R 3.5.0 released · 2018-04-23
R
R 3.4.0 released · 2017-04-21
1.0.0Latest
record
2017-04-18 · current release · diff ↗ ·
removed 1 export
pattern:^[^.]

added 4 exports
getMinorMajorCopyNumbers, listDataSets, listTumorFractions, loadCnRegionData
R
R 3.3.0 released · 2016-05-03
R
R 3.2.0 released · 2015-04-16
0.2.4
record
2014-11-19
R
R 3.1.0 released · 2014-04-10

Package metadata

First published: 2014-11-19
Total releases: 2 / 12 yrs
License: LGPL (>= 2.1)
Minimum R: ≥ 2.10
Download size: 2.7 MB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("acnr")

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 acnr version 1.0.0 [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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