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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 "topconfects" in publications use:'
type: software
license: LGPL-2.0-only
title: 'topconfects: Top Confident Effect Sizes'
version: 1.28.0
doi: 10.1186/s13059-019-1674-7
identifiers:
- type: doi
  value: 10.32614/CRAN.package.topconfects
abstract: Rank results by confident effect sizes, while maintaining False Discovery
  Rate and False Coverage-statement Rate control. Topconfects is an alternative presentation
  of TREAT results with improved usability, eliminating p-values and instead providing
  confidence bounds. The main application is differential gene expression analysis,
  providing genes ranked in order of confident log2 fold change, but it can be applied
  to any collection of effect sizes with associated standard errors.
authors:
- family-names: Harrison
  given-names: Paul
  email: paul.harrison@monash.edu
  orcid: https://orcid.org/0000-0002-3980-268X
preferred-citation:
  type: article
  title: 'Topconfects: a package for confident effect sizes in differential expression
    analysis provides a more biologically useful ranked gene list'
  authors:
  - family-names: Harrison
    given-names: Paul F
  - family-names: Pattison
    given-names: Andrew D
  - family-names: Powell
    given-names: David R
  - family-names: Beilharz
    given-names: Traude H
  year: '2019'
  volume: '20'
  issue: '1'
  journal: Genome Biology
  doi: 10.1186/s13059-019-1674-7
  url: https://doi.org/10.1186/s13059-019-1674-7
  start: '67'
repository: https://bioc-release.r-universe.dev
repository-code: https://github.com/pfh/topconfects
commit: f68dfcaf7293563e3b002f0fc699367712a96c8c
url: https://github.com/pfh/topconfects
date-released: '2026-04-28'
contact:
- family-names: Harrison
  given-names: Paul
  email: paul.harrison@monash.edu
  orcid: https://orcid.org/0000-0002-3980-268X