# --------------------------------------------
# CITATION 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 "HiCExperiment" in publications use:'
type: software
license: MIT
title: 'HiCExperiment: Bioconductor class for interacting with Hi-C files in R'
version: 1.12.0
doi: 10.1038/s41467-024-44761-x
identifiers:
- type: doi
  value: 10.32614/CRAN.package.HiCExperiment
abstract: R generic interface to Hi-C contact matrices in `.(m)cool`, `.hic` or HiC-Pro
  derived formats, as well as other Hi-C processed file formats. Contact matrices
  can be partially parsed using a random access method, allowing a memory-efficient
  representation of Hi-C data in R. The `HiCExperiment` class stores the Hi-C contacts
  parsed from local contact matrix files. `HiCExperiment` instances can be further
  investigated in R using the `HiContacts` analysis package.
authors:
- family-names: Serizay
  given-names: Jacques
  email: jacquesserizay@gmail.com
  orcid: https://orcid.org/0000-0002-4295-0624
preferred-citation:
  type: article
  title: Orchestrating chromosome conformation capture analysis with Bioconductor
  authors:
  - family-names: Serizay
    given-names: Jacques
    email: jacquesserizay@gmail.com
    orcid: https://orcid.org/0000-0002-4295-0624
  - family-names: Matthey-Doret
    given-names: Cyril
  - family-names: Bignaud
    given-names: Amaury
  - family-names: Baudry
    given-names: Lyam
  - family-names: Koszul
    given-names: Romain
  journal: Nature Communications
  year: '2024'
  volume: '15'
  doi: 10.1038/s41467-024-44761-x
  start: '1'
  end: '9'
repository: https://bioc-release.r-universe.dev
repository-code: https://github.com/js2264/HiCExperiment
commit: f4d282bae2901f9fd1f786ca61afd1ea04145e29
url: https://github.com/js2264/HiCExperiment
date-released: '2025-07-22'
contact:
- family-names: Serizay
  given-names: Jacques
  email: jacquesserizay@gmail.com
  orcid: https://orcid.org/0000-0002-4295-0624