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# CITATION.cff file created with {cffr} R package
# See also: https://docs.ropensci.org/cffr/
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cff-version: 1.2.0
message: 'To cite package "Ckmeans.1d.dp" in publications use:'
type: software
license: LGPL-3.0-or-later
title: 'Ckmeans.1d.dp: Optimal, Fast, and Reproducible Univariate Clustering'
version: 4.3.6
doi: 10.32614/RJ-2011-015
identifiers:
- type: doi
  value: 10.32614/CRAN.package.Ckmeans.1d.dp
abstract: Fast, optimal, and reproducible univariate clustering by dynamic programming.
  Four problems are solved, including univariate k-means (Wang & Song 2011) <https://doi.org/10.32614/RJ-2011-015>
  (Song & Zhong 2020) <https://doi.org/10.1093/bioinformatics/btaa613>, k-median,
  k-segments, and multi-channel weighted k-means. Dynamic programming is used to minimize
  the sum of (weighted) within-cluster distances using respective metrics. It substantially
  outperforms heuristic clustering in both efficiency and accuracy as the number of
  clusters increases. Multi-channel weighted k-means groups multiple univariate signals
  into k clusters. An auxiliary function generates histograms adaptive to patterns
  in data. This package provides a powerful set of tools for univariate data analysis
  with guaranteed optimality, efficiency, and reproducibility, useful for peak calling
  on temporal, spatial, and spectral data in addition to univariate clustering.
authors:
- family-names: Song
  given-names: Joe
  email: joemsong@nmsu.edu
  orcid: https://orcid.org/0000-0002-6883-6547
- family-names: Zhong
  given-names: Hua
  orcid: https://orcid.org/0000-0003-1962-2603
- family-names: Wang
  given-names: Haizhou
preferred-citation:
  type: article
  title: 'Ckmeans.1d.dp: Optimal $k$-means clustering in one dimension by dynamic
    programming'
  authors:
  - family-names: Wang
    given-names: Haizhou
  - family-names: Song
    given-names: Mingzhou
  journal: The R Journal
  volume: '3'
  issue: '2'
  year: '2011'
  doi: 10.32614/RJ-2011-015
  start: '29'
  end: '33'
repository: https://cran.r-universe.dev
commit: c960a5334000b27ebc8badec661dac9784e430ba
date-released: '2026-07-25'
contact:
- family-names: Song
  given-names: Joe
  email: joemsong@nmsu.edu
  orcid: https://orcid.org/0000-0002-6883-6547
references:
- type: article
  title: Efficient weighted univariate clustering maps outstanding dysregulated genomic
    zones in human cancers.
  authors:
  - family-names: Song
    given-names: Mingzhou
  - family-names: Zhong
    given-names: Hua
  journal: Bioinformatics
  month: '7'
  year: '2020'
  volume: '36'
  issue: '20'
  doi: 10.1093/bioinformatics/btaa613
  start: '5027'
  end: '5036'
- type: thesis
  title: Model-free Gene-to-zone Network Inference of Molecular Mechanisms in Biology
  authors:
  - family-names: Zhong
    given-names: Hua
  year: '2019'
  institution:
    name: Department of Computer Science, New Mexico State University
    address: Las Cruces, NM, USA
  thesis-type: PhD Thesis