R Observatory: Metrics for jointseg version 1.0.3

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

jointseg

1.0.3

Joint Segmentation of Multivariate (Copy Number) Signals

3packages depend

6.3Kdownloads / year

–test coverage

13/13checks pass

Overview

About

Maintained by Morgane Pierre-JeanFirst published 2017-11-274 releasesCRAN page ↗GitHub ↗

Methods for fast segmentation of multivariate signals into piecewise constant profiles and for generating realistic copy-number profiles. A typical application is the joint segmentation of total DNA copy numbers and allelic ratios obtained from Single Nucleotide Polymorphism (SNP) microarrays in cancer studies. The methods are described in Pierre-Jean, Rigaill and Neuvial (2015) doi:10.1093/bib/bbu026.

Install

R (CRAN)pak (dev)Ubuntu (r2u)

install.packages("jointseg", 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/jointseg")

Development version from mpierrejean/jointseg. 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-jointseg

Fast Ubuntu binaries via r2u (no compilation). The cranapt setup runs once and is skipped when it is already enabled.

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

Health

CRAN checks

13OK

Slowest check: 3.3 min · r-devel-windows-x86_64

Code health

Yes

Tests · ratio 0.03

not tracked

Coverage

100%

Documentation · exports

3

Dependencies · direct

Check history

OK2026-08-05
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
NOTE2026-08-01
12 OK · 1 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
OK2026-03-10
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMEYes · 194 wordsVignettesYes · dynamicpkgdown siteNoNEWSYes · 100% structuredCode of conductNoContributing guideNo

Examples that run: 96%
Documented parameters: 97%
Return-value docs: 76%
References docs: 60%

Downloads

6.3K

CRAN downloads in the past year

Rank #8,338 · ~17/day · ~528/mo

Releases R versions

Daily download trend is not available in this view yet.

33530 days

1.1K90 days

6.3K1 year

Compare downloads with other packages →

Also on455 r2u

Repository

GitHub ↗ mpierrejean/jointseg

7Stars

1Forks

5Open issues

0Open PRs

0Releases

235Commits

8Contributors

235 commits · Last activity 2019-10-17 · 0% stars, 30d

Stars over time

2023-11-05 · 62026-07-07 · 7

Repository practices

Upstream repositoryBeta

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

Checks run against github.com/mpierrejean/jointseg on 2026-08-16.

Continuous integration (2)

Travis CIAppVeyor

CRAN release process (1)

cran-comments.md

How this is detected·Detection ruleset v1 (2026-07-18)

Dependencies

Declared dependencies

10 external dependencies (excludes base and recommended)

Depends (1)

R >= 3.1.0

Imports (3)

acnr matrixStats DNAcopy

LinkingTo (0)

none

Suggests (7)

PSCBS R.cache digest changepoint knitr rmarkdown testthat

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

3direct

0indirect

SegCorr CNVScope penaltyLearning

Code & Tests

People & History

People (3)

Maintainer (1)

Morgane Pierre-Jean

Author, Maintainer

Authors (3)

Morgane Pierre-Jean

Author, Maintainer

Pierre Neuvial

Author

Guillem Rigaill

Author

Package Timeline

4 releases. Pick two to compare their code metrics. R releases are shown for context.

R
R 4.6.0 released · 2026-04-24
1.0.3Latest
2025-05-14 · current release · diff ↗
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
1.0.2
2019-01-11 · diff ↗
R
R 3.5.0 released · 2018-04-23
1.0.1
2017-11-28 · diff ↗
1.0.0
2017-11-27
R
R 3.4.0 released · 2017-04-21

Package metadata

First published: 2017-11-27
Total releases: 4 / 9 yrs
License: LGPL (>= 2.1)
Minimum R: ≥ 3.1.0
Download size: 939 KB
Installed size: not tracked yet
With dependencies: not tracked yet

Appears in task views

Time Series Analysis

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("jointseg")

Format

Pierre-Jean, M., Neuvial, P., & Rigaill, G. (2025). jointseg: Joint Segmentation of Multivariate (Copy Number) Signals (Version 1.0.3) [Computer software]. https://doi.org/10.32614/CRAN.package.jointseg

This is what citation() produces when a package has no citation file of its own. If it prints something else, use that.

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 jointseg version 1.0.3 [Data set]. HJJB, LLC. Data release v2026-08-18. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-18, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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