PeakSegOptimal

2024.10.1

Optimal Segmentation Subject to Up-Down Constraints

0packages depend

3.3Kdownloads / year

79.9%test coverage

13/13checks pass

Overview

About

Maintained by Toby Dylan HockingFirst published 2017-06-216 releasesCRAN page ↗GitHub ↗

Computes optimal changepoint models using the Poisson likelihood for non-negative count data, subject to the PeakSeg constraint: the first change must be up, second change down, third change up, etc. For more info about the models and algorithms, read "Constrained Dynamic Programming and Supervised Penalty Learning Algorithms for Peak Detection" https://jmlr.org/papers/v21/18-843.html by TD Hocking et al.

Install

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

install.packages("PeakSegOptimal", 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("tdhock/PeakSegOptimal")

Development version from tdhock/PeakSegOptimal. 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-peaksegoptimal

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

# 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-PeakSegOptimal

RPMs auto-built from CRAN on openSUSE OBS (Tumbleweed).

Health

CRAN checks

13OK

Slowest check: 5.1 min · r-devel-windows-x86_64

Check history

OK2026-03-10
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

Documentation signals are not tracked yet for this package.

Downloads

3.3K

CRAN downloads in the past year

Rank #13,160 · ~9/day · ~274/mo

PeakSegOptimal Releases R versions

Daily download trend is not available in this view yet.

21230 days

79790 days

3.3K1 year

Compare downloads with other packages →

Also on398 r2u17 autocran13 c2d4u

Repository

GitHub ↗ tdhock/peaksegoptimal

6Stars

23Forks

0Open issues

2Open PRs

0Releases

272Commits

4Contributors

272 commits · Last activity 2026-03-27

Repository practices

Upstream repositoryBeta

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

Checks run against github.com/tdhock/peaksegoptimal on 2026-07-19.

Continuous integration (1)

GitHub Actions

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

Dependencies

Declared dependencies

5 external dependencies (excludes base and recommended)

Depends (1)

R >= 2.10

Imports (1)

penaltyLearning

LinkingTo (0)

none

Suggests (4)

PeakSegDP ggplot2 testthat data.table (>= 1.9.8)

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

Datasets

People & History

People (1)

Maintainer (1)

Toby Dylan Hocking

Author, Maintainer

Authors (1)

Toby Dylan Hocking

Author, Maintainer

Listed in earlier versions (1)

Hocking

no longer listed · 2024.10.1

Package Timeline

6 releases. R releases are shown for context.

R
R 4.6.0 released · 2026-04-24
R
R 4.5.0 released · 2025-04-11
2024.10.1Latest
2024-10-02 · current release · diff ↗
R
R 4.4.0 released · 2024-04-24
2024.1.24
2024-01-24 · diff ↗
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
2018.05.25
2018-05-25 · diff ↗
R
R 3.5.0 released · 2018-04-23
2017.07.12
2017-07-12 · diff ↗
2017.07.11
2017-07-11 · diff ↗
2017.06.20
2017-06-21
R
R 3.4.0 released · 2017-04-21

Package metadata

First published: 2017-06-21
Total releases: 6 / 9 yrs
License: GPL-3 OSI
Download size: 127 KB
Installed size: not tracked yet
With dependencies: not tracked yet

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Genomics, Proteomics, Metabolomics, Transcriptomics, and Other Omics

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