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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 "DNEA" in publications use:'
type: software
license: MIT
title: 'DNEA: Differential Network Enrichment Analysis for Biological Data'
version: 1.3.0
doi: 10.1186/s12859-024-05994-1
identifiers:
- type: doi
  value: 10.32614/CRAN.package.DNEA
abstract: The DNEA R package is the latest implementation of the Differential Network
  Enrichment Analysis algorithm and is the successor to the Filigree Java-application
  described in Iyer et al. (2020). The package is designed to take as input an m x
  n expression matrix for some -omics modality (ie. metabolomics, lipidomics, proteomics,
  etc.) and jointly estimate the biological network associations of each condition
  using the DNEA algorithm described in Ma et al. (2019). This approach provides a
  framework for data-driven enrichment analysis across two experimental conditions
  that utilizes the underlying correlation structure of the data to determine feature-feature
  interactions.
authors:
- family-names: Patsalis
  given-names: Christopher
  email: chrispatsalis@gmail.com
  orcid: https://orcid.org/0009-0003-4585-0017
- family-names: Iyer
  given-names: Gayatri
  email: griyer@umich.edu
preferred-citation:
  type: article
  title: 'DNEA: an R package for fast and versatile data-driven network analysis of
    metabolomics data'
  authors:
  - family-names: Patsalis
    given-names: Christopher
    email: chrispatsalis@gmail.com
    orcid: https://orcid.org/0009-0003-4585-0017
  - family-names: Iyer
    given-names: Gayatri
    email: griyer@umich.edu
  - family-names: Brandenburg
    given-names: Marci
  - family-names: Karnovsky
    given-names: Alla
  - family-names: Michailidis
    given-names: George
  journal: BMC Bioinformatics
  year: '2024'
  volume: '25'
  issue: '1'
  doi: 10.1186/s12859-024-05994-1
  start: '383'
repository: https://bioc.r-universe.dev
repository-code: https://github.com/Karnovsky-Lab/DNEA
commit: 3efd42f7cacf7e7e77aed34e9a57984cac6aac3b
url: https://github.com/Karnovsky-Lab/DNEA
date-released: '2026-04-28'
contact:
- family-names: Patsalis
  given-names: Christopher
  email: chrispatsalis@gmail.com
  orcid: https://orcid.org/0009-0003-4585-0017