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# 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 "edgeR" in publications use:'
type: software
title: 'edgeR: Empirical Analysis of Digital Gene Expression Data in R'
version: 4.10.1
doi: 10.1093/nar/gkaf018
identifiers:
- type: doi
  value: 10.32614/CRAN.package.edgeR
- type: url
  value: https://bioconductor.org/packages/edgeR
abstract: Differential expression analysis of sequence count data. Implements a range
  of statistical methodology based on the negative binomial distributions, including
  empirical Bayes estimation, exact tests, generalized linear models, quasi-likelihood,
  and gene set enrichment. Can perform differential analyses of any type of omics
  data that produces read counts, including RNA-seq, ChIP-seq, ATAC-seq, Bisulfite-seq,
  SAGE, CAGE, metabolomics, or proteomics spectral counts. RNA-seq analyses can be
  conducted at the gene or isoform level, and tests can be conducted for differential
  exon or transcript usage.
authors:
- family-names: Chen
  given-names: Yunshun
  email: yuchen@wehi.edu.au
- family-names: Chen
  given-names: Lizhong
- family-names: Lun
  given-names: Aaron TL
- family-names: McCarthy
  given-names: Davis J
- family-names: Baldoni
  given-names: Pedro
- family-names: Ritchie
  given-names: Matthew E
- family-names: Phipson
  given-names: Belinda
- family-names: Hu
  given-names: Yifang
- family-names: Zhou
  given-names: Xiaobei
- family-names: Robinson
  given-names: Mark D
- family-names: Smyth
  given-names: Gordon K
preferred-citation:
  type: article
  title: 'edgeR v4: powerful differential analysis of sequencing data with expanded
    functionality and improved support for small counts and larger datasets'
  authors:
  - family-names: Chen
    given-names: Yunshun
    email: yuchen@wehi.edu.au
  - family-names: Chen
    given-names: Lizhong
  - family-names: Lun
    given-names: Aaron T L
  - family-names: Baldoni
    given-names: Pedro
  - family-names: Smyth
    given-names: Gordon K
  year: '2025'
  journal: Nucleic Acids Research
  volume: '53'
  issue: '2'
  doi: 10.1093/nar/gkaf018
  start: gkaf018
repository: https://bioc-release.r-universe.dev
commit: 5a71e43e4c203bf14f0201e9151d4fcfd00e8f0d
url: https://bioinf.wehi.edu.au/edgeR/
date-released: '2026-05-23'
contact:
- family-names: Chen
  given-names: Yunshun
  email: yuchen@wehi.edu.au